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= 015345
(408 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TWL|A Chain A, Crystal Structure Of Arabidopsis Thaliana Fpg
pdb|3TWM|A Chain A, Crystal Structure Of Arabidopsis Thaliana Fpg
pdb|3TWM|B Chain B, Crystal Structure Of Arabidopsis Thaliana Fpg
Length = 310
Score = 503 bits (1296), Expect = e-143, Method: Compositional matrix adjust.
Identities = 248/304 (81%), Positives = 268/304 (88%), Gaps = 2/304 (0%)
Query: 1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGK 60
MPELPEVEAARRAIEE+C+GKKI + IIADDNKVI G+S SDF+ S+LGK I+SA RKGK
Sbjct: 1 MPELPEVEAARRAIEENCLGKKIKRVIIADDNKVIHGISPSDFQTSILGKTIISARRKGK 60
Query: 61 NLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLEL 120
NLWL LDSPPFPSFQFGM GAIYIKGVAVT+YKRSAVKD++EWPSKYSKFFVELDDGLEL
Sbjct: 61 NLWLELDSPPFPSFQFGMAGAIYIKGVAVTKYKRSAVKDSEEWPSKYSKFFVELDDGLEL 120
Query: 121 SFTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSY 180
SFTDKRRFAKVRLL +PTSV PISELGPDALLEPMTVDEF +SL+KKKITIK LLLDQ Y
Sbjct: 121 SFTDKRRFAKVRLLANPTSVSPISELGPDALLEPMTVDEFAESLAKKKITIKPLLLDQGY 180
Query: 181 ISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVGADSSQFPSNW 240
ISGIGNW+ADEVLYQA+IHPLQTA SLSKE C L IKEVIEKA+EV ADSSQFPSNW
Sbjct: 181 ISGIGNWIADEVLYQARIHPLQTASSLSKEQCEALHTSIKEVIEKAVEVDADSSQFPSNW 240
Query: 241 IFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQKLNGVQAAKAVGKPRKQAPKGEDS 300
IFH+REKKPGKAFVDGKKIDFITAGGRTTAYVPELQKL G A KA + A +G
Sbjct: 241 IFHNREKKPGKAFVDGKKIDFITAGGRTTAYVPELQKLYGKDAEKAAK--VRPAKRGVKP 298
Query: 301 KDDD 304
K+DD
Sbjct: 299 KEDD 302
>pdb|3TWK|A Chain A, Crystal Structure Of Arabidopsis Thaliana Fpg
pdb|3TWK|B Chain B, Crystal Structure Of Arabidopsis Thaliana Fpg
Length = 297
Score = 491 bits (1263), Expect = e-139, Method: Compositional matrix adjust.
Identities = 237/279 (84%), Positives = 254/279 (91%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVEAARRAIEE+C+GKKI + IIADDNKVI G+S SDF+ S+LGK I+SA RKGKN
Sbjct: 2 PELPEVEAARRAIEENCLGKKIKRVIIADDNKVIHGISPSDFQTSILGKTIISARRKGKN 61
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
LWL LDSPPFPSFQFG GAIYIKGVAVT+YKRSAVKD++EWPSKYSKFFVELDDGLELS
Sbjct: 62 LWLELDSPPFPSFQFGXAGAIYIKGVAVTKYKRSAVKDSEEWPSKYSKFFVELDDGLELS 121
Query: 122 FTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSYI 181
FTDKRRFAKVRLL +PTSV PISELGPDALLEP TVDEF +SL+KKKITIK LLLDQ YI
Sbjct: 122 FTDKRRFAKVRLLANPTSVSPISELGPDALLEPXTVDEFAESLAKKKITIKPLLLDQGYI 181
Query: 182 SGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVGADSSQFPSNWI 241
SGIGNW+ADEVLYQA+IHPLQTA SLSKE C L IKEVIEKA+EV ADSSQFPSNWI
Sbjct: 182 SGIGNWIADEVLYQARIHPLQTASSLSKEQCEALHTSIKEVIEKAVEVDADSSQFPSNWI 241
Query: 242 FHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQKLNG 280
FH+REKKPGKAFVDGKKIDFITAGGRTTAYVPELQKL G
Sbjct: 242 FHNREKKPGKAFVDGKKIDFITAGGRTTAYVPELQKLYG 280
>pdb|1EE8|A Chain A, Crystal Structure Of Mutm (Fpg) Protein From Thermus
Thermophilus Hb8
pdb|1EE8|B Chain B, Crystal Structure Of Mutm (Fpg) Protein From Thermus
Thermophilus Hb8
Length = 266
Score = 106 bits (264), Expect = 3e-23, Method: Compositional matrix adjust.
Identities = 80/290 (27%), Positives = 129/290 (44%), Gaps = 43/290 (14%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE RR + +G+ + + + D + + A G+ IL R+GK
Sbjct: 1 PELPEVETTRRRLRPLVLGQTLRQVVHRDPARYRNTALAE-------GRRILEVDRRGKF 53
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L L+ GMTG ++ T + R+A+ + +G L
Sbjct: 54 LLFALEGGVELVAHLGMTGGFRLE---PTPHTRAAL----------------VLEGRTLY 94
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
F D RRF ++ + D +P + LGP+ L E F L + +KALLLDQ
Sbjct: 95 FHDPRRFGRLFGVRRGDYREIPLLLRLGPEPLSEAFAFPGFFRGLKESARPLKALLLDQR 154
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVGADS------ 233
+G+GN ADE L++A++ P + A SL++E L + ++EV+ +A+E+G +
Sbjct: 155 LAAGVGNIYADEALFRARLSPFRPARSLTEEEARRLYRALREVLAEAVELGGSTLSDQSY 214
Query: 234 -------SQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQ 276
F + + RE P A G+ ++ GR T + P Q
Sbjct: 215 RQPDGLPGGFQTRHAVYGREGLPCPAC--GRPVERRVVAGRGTHFCPTCQ 262
>pdb|1L1T|A Chain A, Mutm (Fpg) Bound To Abasic-Site Containing Dna
pdb|1L1Z|A Chain A, Mutm (Fpg) Covalent-Dna Intermediate
pdb|1L2B|A Chain A, Mutm (Fpg) Dna End-Product Structure
pdb|1L2C|A Chain A, Mutm (Fpg)-Dna Estranged Thymine Mismatch Recognition
Complex
pdb|1L2D|A Chain A, Mutm (fpg)-dna Estranged Guanine Mismatch Recognition
Complex
Length = 274
Score = 101 bits (251), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 83/290 (28%), Positives = 124/290 (42%), Gaps = 29/290 (10%)
Query: 1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGK 60
MPELPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 MPELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGK 60
Query: 61 NLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLEL 120
L LD S M G R AV E ++ DG EL
Sbjct: 61 FLKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSEL 106
Query: 121 SFTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQ 178
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLDQ
Sbjct: 107 RYRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDQ 166
Query: 179 SYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG-------- 230
+ ++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 TVVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYV 226
Query: 231 ---ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 NTQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 274
>pdb|1R2Y|A Chain A, Mutm (Fpg) Bound To 8-Oxoguanine (Oxog) Containing Dna
pdb|1R2Z|A Chain A, Mutm (Fpg) Bound To 5,6-Dihydrouracil (Dhu) Containing Dna
Length = 274
Score = 100 bits (248), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 82/290 (28%), Positives = 124/290 (42%), Gaps = 29/290 (10%)
Query: 1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGK 60
MP+LPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 MPQLPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGK 60
Query: 61 NLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLEL 120
L LD S M G R AV E ++ DG EL
Sbjct: 61 FLKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSEL 106
Query: 121 SFTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQ 178
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLDQ
Sbjct: 107 RYRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDQ 166
Query: 179 SYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG-------- 230
+ ++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 TVVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYV 226
Query: 231 ---ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 NTQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 274
>pdb|1K82|A Chain A, Crystal Structure Of E.Coli Formamidopyrimidine-Dna
Glycosylase (Fpg) Covalently Trapped With Dna
pdb|1K82|B Chain B, Crystal Structure Of E.Coli Formamidopyrimidine-Dna
Glycosylase (Fpg) Covalently Trapped With Dna
pdb|1K82|C Chain C, Crystal Structure Of E.Coli Formamidopyrimidine-Dna
Glycosylase (Fpg) Covalently Trapped With Dna
pdb|1K82|D Chain D, Crystal Structure Of E.Coli Formamidopyrimidine-Dna
Glycosylase (Fpg) Covalently Trapped With Dna
Length = 268
Score = 99.0 bits (245), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 80/287 (27%), Positives = 126/287 (43%), Gaps = 30/287 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE +RR IE H +G I+ +++ + ++ VS + S + +LS R+ K
Sbjct: 1 PELPEVETSRRGIEPHLVGATILHAVV-RNGRLRWPVSEEIYRLS--DQPVLSVQRRAKY 57
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L L L + GM+G++ I + P K+ + + +G L
Sbjct: 58 LLLELPEG-WIIIHLGMSGSLRILPEELP-------------PEKHDHVDLVMSNGKVLR 103
Query: 122 FTDKRRFAKVRLLNDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSYI 181
+TD RRF + ++ LGP+ L + + +KKK IK L+D +
Sbjct: 104 YTDPRRFGAWLWTKELEGHNVLTHLGPEPLSDDFNGEYLHQKCAKKKTAIKPWLMDNKLV 163
Query: 182 SGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVGADS-------- 233
G+GN A E L+ A IHP + A SLS C L + IK V+ +++E G +
Sbjct: 164 VGVGNIYASESLFAAGIHPDRLASSLSLAECELLARVIKAVLLRSIEQGGTTLKDFLQSD 223
Query: 234 ---SQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
F + R+ +P + V G I R T Y + QK
Sbjct: 224 GKPGYFAQELQVYGRKGEPCR--VCGTPIVATKHAQRATFYCRQCQK 268
>pdb|2F5N|A Chain A, Mutm Crosslinked To Undamaged Dna Sampling A:t Base Pair
Ic1
pdb|2F5O|A Chain A, Mutm Crosslinked To Undamaged Dna Sampling G:c Base Pair
Ic3
pdb|2F5P|A Chain A, Mutm Crosslinked To Undamaged Dna Sampling A:t Base Pair
Ic2
Length = 274
Score = 98.2 bits (243), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 82/290 (28%), Positives = 123/290 (42%), Gaps = 29/290 (10%)
Query: 1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGK 60
MPELPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 MPELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGK 60
Query: 61 NLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLEL 120
L LD S M G R AV E ++ DG EL
Sbjct: 61 FLKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSEL 106
Query: 121 SFTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQ 178
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD
Sbjct: 107 RYRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDC 166
Query: 179 SYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG-------- 230
+ ++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 TVVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYV 226
Query: 231 ---ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 NTQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 274
>pdb|2F5Q|A Chain A, Catalytically Inactive (E3q) Mutm Crosslinked To Oxog:c
Containing Dna Cc2
pdb|2F5S|A Chain A, Catalytically Inactive (e3q) Mutm Crosslinked To Oxog:c
Containing Dna Cc1
Length = 274
Score = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 81/290 (27%), Positives = 123/290 (42%), Gaps = 29/290 (10%)
Query: 1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGK 60
MP+LPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 MPQLPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGK 60
Query: 61 NLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLEL 120
L LD S M G R AV E ++ DG EL
Sbjct: 61 FLKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSEL 106
Query: 121 SFTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQ 178
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD
Sbjct: 107 RYRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDC 166
Query: 179 SYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG-------- 230
+ ++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 TVVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYV 226
Query: 231 ---ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 NTQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 274
>pdb|3GO8|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog)
Lesion In Ec3- Loop Deletion Complex
Length = 257
Score = 96.3 bits (238), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 80/278 (28%), Positives = 120/278 (43%), Gaps = 23/278 (8%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVGADSSQFPSN 239
++G GN DE L++A I P + A SLS + L + + I +A+ G + +
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGNHHLY--- 223
Query: 240 WIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
+ R+ P K G I+ GR T Y P Q+
Sbjct: 224 --VYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 257
>pdb|3GP1|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog)
Lesion In Ec3- V222p Complex
pdb|3SBJ|A Chain A, Mutm Slanted Complex 7
Length = 273
Score = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 81/289 (28%), Positives = 122/289 (42%), Gaps = 29/289 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG--------- 230
++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTPRTYVN 226
Query: 231 --ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 TQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 273
>pdb|3GPP|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog)
Lesion In Ec3- T224p Complex
pdb|3GQ5|A Chain A, Sequence-Matched Mutm Interrogation Complex 5 (Ic5)
Length = 273
Score = 95.9 bits (237), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 81/289 (28%), Positives = 122/289 (42%), Gaps = 29/289 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG--------- 230
++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRPYVN 226
Query: 231 --ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 TQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 273
>pdb|3SAR|A Chain A, Mutm Slanted Complex 1
pdb|3SAU|A Chain A, Mutm Interrogation Complex 6
pdb|3SAV|A Chain A, Mutm Slanted Complex 8
Length = 273
Score = 95.9 bits (237), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 81/289 (28%), Positives = 122/289 (42%), Gaps = 29/289 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG--------- 230
++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVN 226
Query: 231 --ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 TQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 273
>pdb|3GPX|A Chain A, Sequence-Matched Mutm Interrogation Complex 4 (Ic4)
pdb|3GQ3|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog)
Lesion In Ec5- Loop Deletion Complex
Length = 257
Score = 95.5 bits (236), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 80/278 (28%), Positives = 119/278 (42%), Gaps = 23/278 (8%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVGADSSQFPSN 239
++G GN DE L++A I P + A SLS + L + + I +A+ G +
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGQHHLY--- 223
Query: 240 WIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
+ R+ P K G I+ GR T Y P Q+
Sbjct: 224 --VYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 257
>pdb|3U6C|A Chain A, Mutm Set 1 Apgo
pdb|3U6D|A Chain A, Mutm Set 1 Gpgo
pdb|3U6E|A Chain A, Mutm Set 1 Tpgo
pdb|3U6L|A Chain A, Mutm Set 2 Cpgo
pdb|3U6M|A Chain A, Structural Effects Of Sequence Context On Lesion
Recognition By Mutm
pdb|3U6O|A Chain A, Mutm Set 1 Apg
pdb|3U6P|A Chain A, Mutm Set 1 Gpg
pdb|3U6Q|A Chain A, Mutm Set 2 Apgo
pdb|3U6S|A Chain A, Mutm Set 1 Tpg
Length = 273
Score = 94.7 bits (234), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 80/289 (27%), Positives = 122/289 (42%), Gaps = 29/289 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
P+LPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PQLPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG--------- 230
++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTPRTYVN 226
Query: 231 --ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 TQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 273
>pdb|3GPY|A Chain A, Sequence-Matched Mutm Lesion Recognition Complex 3 (Lrc3)
pdb|3GQ4|A Chain A, Sequence-matched Mutm Lesion Recognition Complex 5 (lrc5)
Length = 273
Score = 94.7 bits (234), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 80/289 (27%), Positives = 122/289 (42%), Gaps = 29/289 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
P+LPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PQLPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG--------- 230
++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVN 226
Query: 231 --ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 TQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 273
>pdb|3JR4|A Chain A, Mutm Interrogating An Extrahelical G
pdb|3JR5|A Chain A, Mutm Lesion Recognition Control Complex With N174c
Crosslinking Site
Length = 273
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 80/289 (27%), Positives = 122/289 (42%), Gaps = 29/289 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
P+LPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PQLPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLDQ+
Sbjct: 107 YRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDQT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG--------- 230
++G G DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 VVAGFGCIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVN 226
Query: 231 --ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 TQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 273
>pdb|3GPU|A Chain A, Mutm Encountering An Intrahelical 8-Oxoguanine (Oxog)
Lesion In Ec4- Loop Deletion Complex
Length = 256
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 80/278 (28%), Positives = 119/278 (42%), Gaps = 24/278 (8%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVGADSSQFPSN 239
++G GN DE L++A I P + A SLS + L + + I +A+ G +
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGQH------H 220
Query: 240 WIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
+ R+ P K G I+ GR T Y P Q+
Sbjct: 221 LYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 256
>pdb|4G4N|A Chain A, Mutm Containing M77a Mutation Bound To Undamaged Dna
Length = 273
Score = 94.0 bits (232), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 79/289 (27%), Positives = 124/289 (42%), Gaps = 29/289 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD + + + +G R AV E ++ DG EL
Sbjct: 61 LKFLLD-------RDALISHLRAEG-------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG--------- 230
++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVN 226
Query: 231 --ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 TQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 273
>pdb|1TDZ|A Chain A, Crystal Structure Complex Between The Lactococcus Lactis
Fpg (Mutm) And A Fapy-Dg Containing Dna
Length = 272
Score = 93.2 bits (230), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 80/287 (27%), Positives = 130/287 (45%), Gaps = 26/287 (9%)
Query: 1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGK 60
MPELPEVE RR +E+ +G+KI+ V+ G + + GK I R+GK
Sbjct: 1 MPELPEVETVRRELEKRIVGQKIISIEATYPRMVLTGFE--QLKKELTGKTIQGISRRGK 58
Query: 61 NLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLEL 120
L + F + + ++G +Y+ + + D K+ ++ DG +L
Sbjct: 59 YLIFEIGD------DFRLISHLRMEG----KYRLATL---DAPREKHDHLTMKFADG-QL 104
Query: 121 SFTDKRRFAKVRLLNDPTSVPPI--SELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQ 178
+ D R+F L++ +P ++GP+ E F + L K IK LL+Q
Sbjct: 105 IYADVRKFGTWELISTDQVLPYFLKKKIGPEPTYEDFDEKLFREKLRKSTKKIKPYLLEQ 164
Query: 179 SYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVGADS----S 234
+ ++G+GN DEVL+ AKIHP + L + S L I E+++KA+++G S S
Sbjct: 165 TLVAGLGNIYVDEVLWLAKIHPEKETNQLIESSIHLLHDSIIEILQKAIKLGGSSIRTYS 224
Query: 235 QFPSNWIFHSREKKPG----KAFVDGKKIDFITAGGRTTAYVPELQK 277
S + + G K G +I I GR T + P Q+
Sbjct: 225 ALGSTGKMQNELQVYGKTGEKCSRCGAEIQKIKVAGRGTHFCPVCQQ 271
>pdb|3SAS|A Chain A, Mutm Slanted Complex 4 With R112a Mutation
pdb|3SAT|A Chain A, Mutm Slanted Complex 6 With R112a Mutation
pdb|3SAW|A Chain A, Mutm Slanted Complex 8 With R112a Mutation
Length = 273
Score = 92.8 bits (229), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 80/289 (27%), Positives = 121/289 (41%), Gaps = 29/289 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D +F + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVAKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG--------- 230
++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVN 226
Query: 231 --ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 TQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 273
>pdb|4G4O|A Chain A, Mutm Containing M77a Mutation Bound To Oxog-containing Dna
Length = 273
Score = 92.8 bits (229), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 78/289 (26%), Positives = 124/289 (42%), Gaps = 29/289 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
P+LPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PQLPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD + + + +G R AV E ++ DG EL
Sbjct: 61 LKFLLD-------RDALISHLRAEG-------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKFGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG--------- 230
++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVN 226
Query: 231 --ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 TQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 273
>pdb|4G4Q|A Chain A, Mutm Containing F114a Mutation Bound To Undamaged Dna
Length = 273
Score = 92.0 bits (227), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 80/289 (27%), Positives = 121/289 (41%), Gaps = 29/289 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PELPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+ + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKAGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG--------- 230
++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVN 226
Query: 231 --ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 TQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 273
>pdb|4G4R|A Chain A, Mutm Containing F114a Mutation Bound To Oxog-containing
Dna
Length = 273
Score = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 79/289 (27%), Positives = 121/289 (41%), Gaps = 29/289 (10%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
P+LPEVE RR + +GK I I N + + F A ++G+ + R+GK
Sbjct: 1 PQLPEVETIRRTLLPLIVGKTIEDVRIFWPNIIRHPRDSEAFAARMIGQTVRGLERRGKF 60
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L LD S M G R AV E ++ DG EL
Sbjct: 61 LKFLLDRDALIS-HLRMEG-------------RYAVASALEPLEPHTHVVFCFTDGSELR 106
Query: 122 FTDKRRFAKVRLL--NDPTSVPPISELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+ + + + PP++ELGP+ L + + K K ++KALLLD +
Sbjct: 107 YRDVRKAGTMHVYAKEEADRRPPLAELGPEPLSPAFSPAVLAERAVKTKRSVKALLLDCT 166
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVG--------- 230
++G GN DE L++A I P + A SLS + L + + I +A+ G
Sbjct: 167 VVAGFGNIYVDESLFRAGILPGRPAASLSSKEIERLHEEMVATIGEAVMKGGSTVRTYVN 226
Query: 231 --ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAGGRTTAYVPELQK 277
++ F + + R+ P K G I+ GR T Y P Q+
Sbjct: 227 TQGEAGTFQHHLYVYGRQGNPCKRC--GTPIEKTVVAGRGTHYCPRCQR 273
>pdb|1PJI|A Chain A, Crystal Structure Of Wild Type Lactococcus Lactis Fpg
Complexed To A 1,3 Propanediol Containing Dna
pdb|1PM5|A Chain A, Crystal Structure Of Wild Type Lactococcus Lactis Fpg
Complexed To A Tetrahydrofuran Containing Dna
pdb|1XC8|A Chain A, Crystal Structure Complex Between The Wild-Type
Lactococcus Lactis Fpg (Mutm) And A Fapy-Dg Containing
Dna
pdb|3C58|A Chain A, Crystal Structure Of A Complex Between The Wild-Type
Lactococcus Lactis Fpg (Mutm) And A N7-Benzyl-Fapy-Dg
Containing Dna
pdb|2XZF|A Chain A, Crystal Structure Of A Complex Between The Wild-Type
Lactococcus Lactis Fpg (Mutm) And An Oxidized Pyrimidine
Containing Dna At 293k
pdb|2XZU|A Chain A, Crystal Structure Of A Complex Between The Wild-Type
Lactococcus Lactis Fpg (Mutm) And An Oxidized Pyrimidine
Containing Dna At 310k
Length = 271
Score = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 79/286 (27%), Positives = 129/286 (45%), Gaps = 26/286 (9%)
Query: 2 PELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKN 61
PELPEVE RR +E+ +G+KI+ V+ G + + GK I R+GK
Sbjct: 1 PELPEVETVRRELEKRIVGQKIISIEATYPRMVLTGFE--QLKKELTGKTIQGISRRGKY 58
Query: 62 LWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELS 121
L + F + + ++G +Y+ + + D K+ ++ DG +L
Sbjct: 59 LIFEIGD------DFRLISHLRMEG----KYRLATL---DAPREKHDHLTMKFADG-QLI 104
Query: 122 FTDKRRFAKVRLLNDPTSVPPI--SELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQS 179
+ D R+F L++ +P ++GP+ E F + L K IK LL+Q+
Sbjct: 105 YADVRKFGTWELISTDQVLPYFLKKKIGPEPTYEDFDEKLFREKLRKSTKKIKPYLLEQT 164
Query: 180 YISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVGADS----SQ 235
++G+GN DEVL+ AKIHP + L + S L I E+++KA+++G S S
Sbjct: 165 LVAGLGNIYVDEVLWLAKIHPEKETNQLIESSIHLLHDSIIEILQKAIKLGGSSIRTYSA 224
Query: 236 FPSNWIFHSREKKPG----KAFVDGKKIDFITAGGRTTAYVPELQK 277
S + + G K G +I I GR T + P Q+
Sbjct: 225 LGSTGKMQNELQVYGKTGEKCSRCGAEIQKIKVAGRGTHFCPVCQQ 270
>pdb|1NNJ|A Chain A, Crystal Structure Complex Between The Lactococcus Lactis
Fpg And An Abasic Site Containing Dna
pdb|1PJJ|A Chain A, Complex Between The Lactococcus Lactis Fpg And An Abasic
Site Containing Dna
Length = 271
Score = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 78/285 (27%), Positives = 128/285 (44%), Gaps = 26/285 (9%)
Query: 3 ELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNL 62
ELPEVE RR +E+ +G+KI+ V+ G + + GK I R+GK L
Sbjct: 2 ELPEVETVRRELEKRIVGQKIISIEATYPRMVLTGFE--QLKKELTGKTIQGISRRGKYL 59
Query: 63 WLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELSF 122
+ F + + ++G +Y+ + + D K+ ++ DG +L +
Sbjct: 60 IFEIGD------DFRLISHLRMEG----KYRLATL---DAPREKHDHLTMKFADG-QLIY 105
Query: 123 TDKRRFAKVRLLNDPTSVPPI--SELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSY 180
D R+F L++ +P ++GP+ E F + L K IK LL+Q+
Sbjct: 106 ADVRKFGTWELISTDQVLPYFLKKKIGPEPTYEDFDEKLFREKLRKSTKKIKPYLLEQTL 165
Query: 181 ISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVGADS----SQF 236
++G+GN DEVL+ AKIHP + L + S L I E+++KA+++G S S
Sbjct: 166 VAGLGNIYVDEVLWLAKIHPEKETNQLIESSIHLLHDSIIEILQKAIKLGGSSIRTYSAL 225
Query: 237 PSNWIFHSREKKPG----KAFVDGKKIDFITAGGRTTAYVPELQK 277
S + + G K G +I I GR T + P Q+
Sbjct: 226 GSTGKMQNELQVYGKTGEKCSRCGAEIQKIKVAGRGTHFCPVCQQ 270
>pdb|1KFV|A Chain A, Crystal Structure Of Lactococcus Lactis
Formamido-Pyrimidine Dna Glycosylase (Alias Fpg Or Mutm)
Non Covalently Bound To An Ap Site Containing Dna.
pdb|1KFV|B Chain B, Crystal Structure Of Lactococcus Lactis
Formamido-Pyrimidine Dna Glycosylase (Alias Fpg Or Mutm)
Non Covalently Bound To An Ap Site Containing Dna
Length = 271
Score = 85.5 bits (210), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 79/287 (27%), Positives = 127/287 (44%), Gaps = 30/287 (10%)
Query: 3 ELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAHRKGKNL 62
ELPEVE RR +E+ +G+KI+ V+ G + + GK I R+GK L
Sbjct: 2 ELPEVETVRRELEKRIVGQKIISIEATYPRXVLTGFE--QLKKELTGKTIQGISRRGKYL 59
Query: 63 WLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKFFVELDDGLELSF 122
+ F + + +G +Y+ + + D K+ + DG +L +
Sbjct: 60 IFEIGD------DFRLISHLRXEG----KYRLATL---DAPREKHDHLTXKFADG-QLIY 105
Query: 123 TDKRRFAKVRLLNDPTSVPPI--SELGPDALLEPMTVDEFTDSLSKKKITIKALLLDQSY 180
D R+F L++ +P ++GP+ E F + L K IK LL+Q+
Sbjct: 106 ADVRKFGTWELISTDQVLPYFLKKKIGPEPTYEDFDEKLFREKLRKSTKKIKPYLLEQTL 165
Query: 181 ISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKEVIEKALEVGADSSQFPSNW 240
++G+GN DEVL+ AKIHP + L + S L I E+++KA+++G S + S
Sbjct: 166 VAGLGNIYVDEVLWLAKIHPEKETNQLIESSIHLLHDSIIEILQKAIKLGGSSIRTYSA- 224
Query: 241 IFHSREKKPGKAFVDGK----------KIDFITAGGRTTAYVPELQK 277
S K + V GK +I I GR T + P Q+
Sbjct: 225 -LGSTGKXQNELQVYGKTGEKCSRCGAEIQKIKVAGRGTHFCPVCQQ 270
>pdb|3A45|A Chain A, Crystal Structure Of Mvnei1_2
pdb|3A45|B Chain B, Crystal Structure Of Mvnei1_2
pdb|3A46|A Chain A, Crystal Structure Of Mvnei1/thf Complex
pdb|3A46|B Chain B, Crystal Structure Of Mvnei1/thf Complex
Length = 289
Score = 68.2 bits (165), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 65/232 (28%), Positives = 104/232 (44%), Gaps = 37/232 (15%)
Query: 1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSA----------SDFEASVLGK 50
MPE PEV +E++ GK + + ID +S DF A++ K
Sbjct: 1 MPEGPEVALTADILEKYFKGKTL---------EYIDFISGRYSKSEPEGYDDFIANLPLK 51
Query: 51 AILSAHRKGKNLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKF 110
+ + KGK LW L P S ++ + + G+ + +KY++
Sbjct: 52 -VSNVDTKGKFLWFELFDPNDKSNKWYIWNTFGLTGMWSL------------FEAKYTRA 98
Query: 111 FVELDDGLELSFTDKRRFAKVRLLNDPTSVP-PISELGPDALLEPMTVDEFTDSLSKKKI 169
+ D+ L F+D R F + N + ++ELGPD L+ +D + K K
Sbjct: 99 VLSFDNELMAYFSDMRNFGTFKFSNSEKELKRKLNELGPD-FLKNDDID--ISKIKKYKQ 155
Query: 170 TIKALLLDQSYI-SGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIK 220
I ALL+DQ I SG+GN++ E+LY+AKI P + +L+ + L IK
Sbjct: 156 PIVALLMDQKKIGSGLGNYLVAEILYRAKIDPHKLGSNLTDQEIENLWYWIK 207
>pdb|3A42|A Chain A, Crystal Structure Of Mvnei1
Length = 295
Score = 68.2 bits (165), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 65/232 (28%), Positives = 104/232 (44%), Gaps = 37/232 (15%)
Query: 1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSA----------SDFEASVLGK 50
MPE PEV +E++ GK + + ID +S DF A++ K
Sbjct: 1 MPEGPEVALTADILEKYFKGKTL---------EYIDFISGRYSKSEPEGYDDFIANLPLK 51
Query: 51 AILSAHRKGKNLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKF 110
+ + KGK LW L P S ++ + + G+ + +KY++
Sbjct: 52 -VSNVDTKGKFLWFELFDPNDKSNKWYIWNTFGLTGMWSL------------FEAKYTRA 98
Query: 111 FVELDDGLELSFTDKRRFAKVRLLNDPTSVP-PISELGPDALLEPMTVDEFTDSLSKKKI 169
+ D+ L F+D R F + N + ++ELGPD L+ +D + K K
Sbjct: 99 VLSFDNELMAYFSDMRNFGTFKFSNSEKELKRKLNELGPD-FLKNDDID--ISKIKKYKQ 155
Query: 170 TIKALLLDQSYI-SGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIK 220
I ALL+DQ I SG+GN++ E+LY+AKI P + +L+ + L IK
Sbjct: 156 PIVALLMDQKKIGSGLGNYLVAEILYRAKIDPHKLGSNLTDQEIENLWYWIK 207
>pdb|3VK7|A Chain A, Crystal Structure Of Dna-glycosylase Bound To Dna
Containing 5- Hydroxyuracil
pdb|3VK7|B Chain B, Crystal Structure Of Dna-glycosylase Bound To Dna
Containing 5- Hydroxyuracil
pdb|3VK8|A Chain A, Crystal Structure Of Dna-glycosylase Bound To Dna
Containing Thymine Glycol
pdb|3VK8|B Chain B, Crystal Structure Of Dna-glycosylase Bound To Dna
Containing Thymine Glycol
Length = 295
Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 64/232 (27%), Positives = 104/232 (44%), Gaps = 37/232 (15%)
Query: 1 MPELPEVEAARRAIEEHCIGKKIVKSIIADDNKVIDGVSA----------SDFEASVLGK 50
MP+ PEV +E++ GK + + ID +S DF A++ K
Sbjct: 1 MPQGPEVALTADILEKYFKGKTL---------EYIDFISGRYSKSEPEGYDDFIANLPLK 51
Query: 51 AILSAHRKGKNLWLRLDSPPFPSFQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPSKYSKF 110
+ + KGK LW L P S ++ + + G+ + +KY++
Sbjct: 52 -VSNVDTKGKFLWFELFDPNDKSNKWYIWNTFGLTGMWSL------------FEAKYTRA 98
Query: 111 FVELDDGLELSFTDKRRFAKVRLLNDPTSVP-PISELGPDALLEPMTVDEFTDSLSKKKI 169
+ D+ L F+D R F + N + ++ELGPD L+ +D + K K
Sbjct: 99 VLSFDNELMAYFSDMRNFGTFKFSNSEKELKRKLNELGPD-FLKNDDID--ISKIKKYKQ 155
Query: 170 TIKALLLDQSYI-SGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIK 220
I ALL+DQ I SG+GN++ E+LY+AKI P + +L+ + L IK
Sbjct: 156 PIVALLMDQKKIGSGLGNYLVAEILYRAKIDPHKLGSNLTDQEIENLWYWIK 207
>pdb|1TDH|A Chain A, Crystal Structure Of Human Endonuclease Viii-Like 1
(Neil1)
Length = 364
Score = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 65/229 (28%), Positives = 89/229 (38%), Gaps = 54/229 (23%)
Query: 1 MPELPEVEAARRAIEEHC----IGKKIVKSIIADDNKVIDGVSASDFEASVLGKAILSAH 56
MPE PE+ A + + E C G + KS ++ + +V SA AS GK
Sbjct: 1 MPEGPELHLASQFVNEACRALVFGGCVEKSSVSRNPEVPFESSAYRISASARGKE----- 55
Query: 57 RKGKNLWLRLDSPPFPS-----------FQFGMTGAIYIKGVAVTQYKRSAVKDTDEWPS 105
LRL P P F+FGM+G+ + +E P
Sbjct: 56 -------LRLILSPLPGAQPQQEPLALVFRFGMSGSFQLV-------------PREELPR 95
Query: 106 KYSKFFVELDDG--LELSFTDKRRFAKVRLLN--DPTSVPPISELGPDALLEPMTVDE-F 160
F G L L F D RRF + L P GP L E E
Sbjct: 96 HAHLRFYTAPPGPRLALCFVDIRRFGRWDLGGKWQPGR-------GPCVLQEYQQFRESV 148
Query: 161 TDSLSKKKI--TIKALLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSL 207
+L+ K I LLDQ + +GIGN++ E+LY+ KI P + A S+
Sbjct: 149 LRNLADKAFDRPICEALLDQRFFNGIGNYLRAEILYRLKIPPFEKARSV 197
>pdb|2OQ4|A Chain A, Crystal Structure Of The Dna Repair Enzyme Endonuclease-
Viii (Nei) From E. Coli (E2q) In Complex With Ap-Site
Containing Dna Substrate
pdb|2OQ4|B Chain B, Crystal Structure Of The Dna Repair Enzyme Endonuclease-
Viii (Nei) From E. Coli (E2q) In Complex With Ap-Site
Containing Dna Substrate
Length = 262
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 36/64 (56%), Gaps = 3/64 (4%)
Query: 138 TSVPPISELGPDAL---LEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLY 194
T+ P + +GPD L L P V E S + LLLDQ++++G+GN++ E+L+
Sbjct: 117 TTHPFLQRVGPDVLDPNLTPEVVKERLLSPRFRNRQFAGLLLDQAFLAGLGNYLRVEILW 176
Query: 195 QAKI 198
Q +
Sbjct: 177 QVGL 180
>pdb|1Q3C|A Chain A, Crystal Structure Of The Dna Repair Enzyme
Endonuclease-Viii (Nei) From E. Coli: The E2a Mutant At
2.3 Resolution
Length = 262
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 36/64 (56%), Gaps = 3/64 (4%)
Query: 138 TSVPPISELGPDAL---LEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLY 194
T+ P + +GPD L L P V E S + LLLDQ++++G+GN++ E+L+
Sbjct: 117 TTHPFLQRVGPDVLDPNLTPEVVKERLLSPRFRNRQFAGLLLDQAFLAGLGNYLRVEILW 176
Query: 195 QAKI 198
Q +
Sbjct: 177 QVGL 180
>pdb|1K3W|A Chain A, Crystal Structure Of A Trapped Reaction Intermediate Of
The Dna Repair Enzyme Endonuclease Viii With Dna
pdb|1K3X|A Chain A, Crystal Structure Of A Trapped Reaction Intermediate Of
The Dna Repair Enzyme Endonuclease Viii With
Brominated-Dna
pdb|1Q39|A Chain A, Crystal Structure Of The Dna Repair Enzyme
Endonuclease-Viii (Nei) From E. Coli: The Wt Enzyme At
2.8 Resolution.
pdb|2EA0|A Chain A, Crystal Structure Of The Dna Repair Enzyme
Endonuclease-viii (nei) From E. Coli In Complex With
Ap-site Containing Dna Substrate
Length = 262
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 36/64 (56%), Gaps = 3/64 (4%)
Query: 138 TSVPPISELGPDAL---LEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLY 194
T+ P + +GPD L L P V E S + LLLDQ++++G+GN++ E+L+
Sbjct: 117 TTHPFLQRVGPDVLDPNLTPEVVKERLLSPRFRNRQFAGLLLDQAFLAGLGNYLRVEILW 176
Query: 195 QAKI 198
Q +
Sbjct: 177 QVGL 180
>pdb|1Q3B|A Chain A, Crystal Structure Of The Dna Repair Enzyme
Endonuclease-Viii (Nei) From E. Coli: The R252a Mutant
At 2.05 Resolution.
pdb|2OPF|A Chain A, Crystal Structure Of The Dna Repair Enzyme
Endonuclease-Viii (Nei) From E. Coli (R252a) In Complex
With Ap-Site Containing Dna Substrate
Length = 262
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 36/64 (56%), Gaps = 3/64 (4%)
Query: 138 TSVPPISELGPDAL---LEPMTVDEFTDSLSKKKITIKALLLDQSYISGIGNWVADEVLY 194
T+ P + +GPD L L P V E S + LLLDQ++++G+GN++ E+L+
Sbjct: 117 TTHPFLQRVGPDVLDPNLTPEVVKERLLSPRFRNRQFAGLLLDQAFLAGLGNYLRVEILW 176
Query: 195 QAKI 198
Q +
Sbjct: 177 QVGL 180
>pdb|3W0F|A Chain A, Crystal Structure Of Mouse Endonuclease Viii-like 3
(mneil3)
Length = 287
Score = 36.2 bits (82), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 27/109 (24%), Positives = 46/109 (42%), Gaps = 12/109 (11%)
Query: 174 LLLDQSYISGIGNWVADEVLYQAKIHPLQTAVSLSKESCATLLKCIKE---VIEKALEVG 230
+LLDQ + G+GN + +E L+ + +HP LS + L+K ++ + + + G
Sbjct: 180 VLLDQRVLPGVGNIIKNEALFDSGLHPAVKVCQLSDKQACHLVKMTRDFSILFYRCCKAG 239
Query: 231 ADSSQFPSNWIFHSREKKPGKAFVDGKKIDFITAG--GRTTAYVPELQK 277
+ S+ H + K KI G R T + P QK
Sbjct: 240 SAISK-------HCKVYKRPNCDQCHSKITVCRFGENSRMTYFCPHCQK 281
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
0.312 0.130 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,482,246
Number of Sequences: 62578
Number of extensions: 409744
Number of successful extensions: 727
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 35
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 659
Number of HSP's gapped (non-prelim): 45
length of query: 408
length of database: 14,973,337
effective HSP length: 101
effective length of query: 307
effective length of database: 8,652,959
effective search space: 2656458413
effective search space used: 2656458413
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (25.0 bits)