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= 017771
(366 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2O3H|A Chain A, Crystal Structure Of The Human C65a Ape
Length = 285
Score = 116 bits (291), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 89/306 (29%), Positives = 149/306 (48%), Gaps = 57/306 (18%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
LK +WN + L +K + +++ PD++ LQE + P QEL
Sbjct: 29 LKIASWNVDGLRAWIKK---KGLDWVKEEAPDILCLQETK---CSENKLPAELQEL---- 78
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSK-YAGTALLVKKCFQPKKVSFSLEKTALK 160
P ++Q W + +D + Y+G LL ++C P KVS+ + +
Sbjct: 79 -----------------PGLSHQYWSAPSDKEGYSGVGLLSRQC--PLKVSYGIGDE--E 117
Query: 161 YEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQ-CSGKPLIWC 219
++ +GRVI+AEF++F L+ Y PN G + R++WD+ ++F+ S KPL+ C
Sbjct: 118 HDQEGRVIVAEFDSFVLVTAYVPNAG--RGLVRLEYRQRWDEAFRKFLKGLASRKPLVLC 175
Query: 220 GDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAY 279
GDLNV+HEEID+ +P+ NK++ GFT ER+ FG +L+ L D++
Sbjct: 176 GDLNVAHEEIDLRNPKG------------NKKN---AGFTPQERQGFGELLQAVPLADSF 220
Query: 280 RFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYG 339
R L+ F W+ + + R+DYF++S L + +++ + G
Sbjct: 221 RHLYPNTPYAYTF-WTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKAL------G 273
Query: 340 SDHCPV 345
SDHCP+
Sbjct: 274 SDHCPI 279
>pdb|1BIX|A Chain A, The Crystal Structure Of The Human Dna Repair Endonuclease
Hap1 Suggests The Recognition Of Extra-Helical
Deoxyribose At Dna Abasic Sites
Length = 287
Score = 116 bits (291), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 89/306 (29%), Positives = 149/306 (48%), Gaps = 57/306 (18%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
LK +WN + L +K + +++ PD++ LQE + P QEL
Sbjct: 31 LKICSWNVDGLRAWIKK---KGLDWVKEEAPDILCLQETK---CSENKLPAELQEL---- 80
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSK-YAGTALLVKKCFQPKKVSFSLEKTALK 160
P ++Q W + +D + Y+G LL ++C P KVS+ + +
Sbjct: 81 -----------------PGLSHQYWSAPSDKEGYSGVGLLSRQC--PLKVSYGIGDE--E 119
Query: 161 YEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQ-CSGKPLIWC 219
++ +GRVI+AEF++F L+ Y PN G + R++WD+ ++F+ S KPL+ C
Sbjct: 120 HDQEGRVIVAEFDSFVLVTAYVPNAG--RGLVRLEYRQRWDEAFRKFLKGLASRKPLVLC 177
Query: 220 GDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAY 279
GDLNV+HEEID+ +P+ NK++ GFT ER+ FG +L+ L D++
Sbjct: 178 GDLNVAHEEIDLRNPKG------------NKKN---AGFTPQERQGFGELLQAVPLADSF 222
Query: 280 RFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYG 339
R L+ F W+ + + R+DYF++S L + +++ + G
Sbjct: 223 RHLYPNTPYAYTF-WTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKAL------G 275
Query: 340 SDHCPV 345
SDHCP+
Sbjct: 276 SDHCPI 281
>pdb|1E9N|A Chain A, A Second Divalent Metal Ion In The Active Site Of A New
Crystal Form Of Human ApurinicAPYRIMIDINIC ENDONUCLEASE,
Ape1, And Its Implications For The Catalytic Mechanism
pdb|1E9N|B Chain B, A Second Divalent Metal Ion In The Active Site Of A New
Crystal Form Of Human ApurinicAPYRIMIDINIC ENDONUCLEASE,
Ape1, And Its Implications For The Catalytic Mechanism
pdb|1HD7|A Chain A, A Second Divalent Metal Ion In The Active Site Of A New
Crystal Form Of Human ApurinicAPYRIDINIMIC ENDONUCLEASE,
Ape1, And Its Implications For The Catalytic Mechanism
pdb|3U8U|A Chain A, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
pdb|3U8U|B Chain B, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
pdb|3U8U|C Chain C, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
pdb|3U8U|D Chain D, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
pdb|3U8U|E Chain E, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
pdb|3U8U|F Chain F, Crystal Structure Of Human ApurinicAPYRIDINIMIC
ENDONUCLEASE, APE1 IN A New Crystal Form
Length = 318
Score = 116 bits (290), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 89/306 (29%), Positives = 149/306 (48%), Gaps = 57/306 (18%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
LK +WN + L +K + +++ PD++ LQE + P QEL
Sbjct: 62 LKICSWNVDGLRAWIKK---KGLDWVKEEAPDILCLQETK---CSENKLPAELQEL---- 111
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSK-YAGTALLVKKCFQPKKVSFSLEKTALK 160
P ++Q W + +D + Y+G LL ++C P KVS+ + +
Sbjct: 112 -----------------PGLSHQYWSAPSDKEGYSGVGLLSRQC--PLKVSYGIGDE--E 150
Query: 161 YEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQ-CSGKPLIWC 219
++ +GRVI+AEF++F L+ Y PN G + R++WD+ ++F+ S KPL+ C
Sbjct: 151 HDQEGRVIVAEFDSFVLVTAYVPNAG--RGLVRLEYRQRWDEAFRKFLKGLASRKPLVLC 208
Query: 220 GDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAY 279
GDLNV+HEEID+ +P+ NK++ GFT ER+ FG +L+ L D++
Sbjct: 209 GDLNVAHEEIDLRNPKG------------NKKN---AGFTPQERQGFGELLQAVPLADSF 253
Query: 280 RFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYG 339
R L+ F W+ + + R+DYF++S L + +++ + G
Sbjct: 254 RHLYPNTPYAYTF-WTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKAL------G 306
Query: 340 SDHCPV 345
SDHCP+
Sbjct: 307 SDHCPI 312
>pdb|1DEW|A Chain A, Crystal Structure Of Human Ape1 Bound To Abasic Dna
pdb|1DEW|B Chain B, Crystal Structure Of Human Ape1 Bound To Abasic Dna
Length = 279
Score = 116 bits (290), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 89/306 (29%), Positives = 149/306 (48%), Gaps = 57/306 (18%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
LK +WN + L +K + +++ PD++ LQE + P QEL
Sbjct: 23 LKICSWNVDGLRAWIKK---KGLDWVKEEAPDILCLQETK---CSENKLPAELQEL---- 72
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSK-YAGTALLVKKCFQPKKVSFSLEKTALK 160
P ++Q W + +D + Y+G LL ++C P KVS+ + +
Sbjct: 73 -----------------PGLSHQYWSAPSDKEGYSGVGLLSRQC--PLKVSYGIGDE--E 111
Query: 161 YEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQ-CSGKPLIWC 219
++ +GRVI+AEF++F L+ Y PN G + R++WD+ ++F+ S KPL+ C
Sbjct: 112 HDQEGRVIVAEFDSFVLVTAYVPNAG--RGLVRLEYRQRWDEAFRKFLKGLASRKPLVLC 169
Query: 220 GDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAY 279
GDLNV+HEEID+ +P+ NK++ GFT ER+ FG +L+ L D++
Sbjct: 170 GDLNVAHEEIDLRNPKG------------NKKN---AGFTPQERQGFGELLQAVPLADSF 214
Query: 280 RFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYG 339
R L+ F W+ + + R+DYF++S L + +++ + G
Sbjct: 215 RHLYPNTPYAYTF-WTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKAL------G 267
Query: 340 SDHCPV 345
SDHCP+
Sbjct: 268 SDHCPI 273
>pdb|1DE8|B Chain B, Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bound To
Abasic Dna
pdb|1DE8|A Chain A, Human ApurinicAPYRIMIDINIC ENDONUCLEASE-1 (Ape1) Bound To
Abasic Dna
pdb|1DE9|A Chain A, Human Ape1 Endonuclease With Bound Abasic Dna And Mn2+ Ion
pdb|1DE9|B Chain B, Human Ape1 Endonuclease With Bound Abasic Dna And Mn2+ Ion
Length = 276
Score = 116 bits (290), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 89/306 (29%), Positives = 149/306 (48%), Gaps = 57/306 (18%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
LK +WN + L +K + +++ PD++ LQE + P QEL
Sbjct: 20 LKICSWNVDGLRAWIKK---KGLDWVKEEAPDILCLQETK---CSENKLPAELQEL---- 69
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSK-YAGTALLVKKCFQPKKVSFSLEKTALK 160
P ++Q W + +D + Y+G LL ++C P KVS+ + +
Sbjct: 70 -----------------PGLSHQYWSAPSDKEGYSGVGLLSRQC--PLKVSYGIGDE--E 108
Query: 161 YEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQ-CSGKPLIWC 219
++ +GRVI+AEF++F L+ Y PN G + R++WD+ ++F+ S KPL+ C
Sbjct: 109 HDQEGRVIVAEFDSFVLVTAYVPNAG--RGLVRLEYRQRWDEAFRKFLKGLASRKPLVLC 166
Query: 220 GDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAY 279
GDLNV+HEEID+ +P+ NK++ GFT ER+ FG +L+ L D++
Sbjct: 167 GDLNVAHEEIDLRNPK------------GNKKN---AGFTPQERQGFGELLQAVPLADSF 211
Query: 280 RFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYG 339
R L+ F W+ + + R+DYF++S L + +++ + G
Sbjct: 212 RHLYPNTPYAYTF-WTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKAL------G 264
Query: 340 SDHCPV 345
SDHCP+
Sbjct: 265 SDHCPI 270
>pdb|2ISI|A Chain A, Crystal Structure Of Ape1 From Homo Sapiens In A New
Crystal Form Complexed With A Ligand
pdb|2ISI|B Chain B, Crystal Structure Of Ape1 From Homo Sapiens In A New
Crystal Form Complexed With A Ligand
pdb|2ISI|C Chain C, Crystal Structure Of Ape1 From Homo Sapiens In A New
Crystal Form Complexed With A Ligand
pdb|4IEM|A Chain A, Human Apurinic/apyrimidinic Endonuclease (ape1) With
Product Dna And Mg2+
pdb|4IEM|B Chain B, Human Apurinic/apyrimidinic Endonuclease (ape1) With
Product Dna And Mg2+
pdb|4IEM|C Chain C, Human Apurinic/apyrimidinic Endonuclease (ape1) With
Product Dna And Mg2+
pdb|4IEM|D Chain D, Human Apurinic/apyrimidinic Endonuclease (ape1) With
Product Dna And Mg2+
Length = 317
Score = 116 bits (290), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 89/306 (29%), Positives = 149/306 (48%), Gaps = 57/306 (18%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
LK +WN + L +K + +++ PD++ LQE + P QEL
Sbjct: 61 LKICSWNVDGLRAWIKK---KGLDWVKEEAPDILCLQETK---CSENKLPAELQEL---- 110
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSK-YAGTALLVKKCFQPKKVSFSLEKTALK 160
P ++Q W + +D + Y+G LL ++C P KVS+ + +
Sbjct: 111 -----------------PGLSHQYWSAPSDKEGYSGVGLLSRQC--PLKVSYGIGDE--E 149
Query: 161 YEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQ-CSGKPLIWC 219
++ +GRVI+AEF++F L+ Y PN G + R++WD+ ++F+ S KPL+ C
Sbjct: 150 HDQEGRVIVAEFDSFVLVTAYVPNAG--RGLVRLEYRQRWDEAFRKFLKGLASRKPLVLC 207
Query: 220 GDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAY 279
GDLNV+HEEID+ +P+ NK++ GFT ER+ FG +L+ L D++
Sbjct: 208 GDLNVAHEEIDLRNPKG------------NKKN---AGFTPQERQGFGELLQAVPLADSF 252
Query: 280 RFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYG 339
R L+ F W+ + + R+DYF++S L + +++ + G
Sbjct: 253 RHLYPNTPYAYTF-WTYMMNARSKNVGWRLDYFLLSHSLLPALCDSKIRSKAL------G 305
Query: 340 SDHCPV 345
SDHCP+
Sbjct: 306 SDHCPI 311
>pdb|2O3C|A Chain A, Crystal Structure Of Zebrafish Ape
pdb|2O3C|B Chain B, Crystal Structure Of Zebrafish Ape
pdb|2O3C|C Chain C, Crystal Structure Of Zebrafish Ape
Length = 282
Score = 100 bits (250), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 83/307 (27%), Positives = 141/307 (45%), Gaps = 60/307 (19%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
+K +WN + L VK N +++ DPD++ LQE T
Sbjct: 27 MKITSWNVDGLRAWVKKNG---LDWVRKEDPDILCLQE---------------------T 62
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSK--YAGTALLVKKCFQPKKVSFSLEKTAL 159
K + + + A+ P K +W+ ++ K Y+G A+L K +P V++ + K
Sbjct: 63 KCAEKALPADITAMPEYPHK----YWAGSEDKEGYSGVAMLCKT--EPLNVTYGIGKE-- 114
Query: 160 KYEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSG-KPLIW 218
+++ +GRVI AEF F+L+ Y PN R+ WD + ++ KPL+
Sbjct: 115 EHDKEGRVITAEFPDFFLVTAYVPNA--SRGLVRLDYRKTWDVDFRAYLCGLDARKPLVL 172
Query: 219 CGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDA 278
CGDLNV+H+EID+ +P K + GFT ER+ F +L+ G D+
Sbjct: 173 CGDLNVAHQEIDLKNP---------------KGNRKNAGFTPEEREGFTQLLEAG-FTDS 216
Query: 279 YRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFY 338
+R L+ ++ F W+ + + R+DYF++S L + +++ +
Sbjct: 217 FRELYPDQAYAYTF-WTYMMNARSKNVGWRLDYFVLSSALLPGLCDSKIRNTAM------ 269
Query: 339 GSDHCPV 345
GSDHCP+
Sbjct: 270 GSDHCPI 276
>pdb|3G91|A Chain A, 1.2 Angstrom Structure Of The Exonuclease Iii Homologue
Mth0212
Length = 265
Score = 83.2 bits (204), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 75/306 (24%), Positives = 131/306 (42%), Gaps = 60/306 (19%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
LK ++WN N L + F + PD++ LQE++ A + P+ + ++
Sbjct: 4 LKIISWNVNGLRAVHRKG---FLKWFMEEKPDILCLQEIK---AAPEQLPRKLRHVE--- 54
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSK-YAGTALLVKKCFQPKKVSFSLEKTALK 160
Y+ +++ A+ K Y+G A+ K + F +E+
Sbjct: 55 --------------------GYRSFFTPAERKGYSGVAMYTKVPPSSLREGFGVER---- 90
Query: 161 YEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQC-SGKPLIWC 219
++ +GR+ +A+F+ F L N Y PN EE + + +D +++ + SG+ +I C
Sbjct: 91 FDTEGRIQIADFDDFLLYNIYFPNGAMSEERLKY-KLEFYDAFLEDVNRERDSGRNVIIC 149
Query: 220 GDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAY 279
GD N +H EID++ P KE+ GF ER ++ G +D +
Sbjct: 150 GDFNTAHREIDLARP---------------KENSNVSGFLPVERAWIDKFIENG-YVDTF 193
Query: 280 RFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYG 339
R + + WS + R R+DYF V+EE K ++ + L G
Sbjct: 194 RMFNSDPGQYTW--WSYRTRARERNVGWRLDYFFVNEEFKGKVKRSWI------LSDVMG 245
Query: 340 SDHCPV 345
SDHCP+
Sbjct: 246 SDHCPI 251
>pdb|3FZI|A Chain A, 1.9 Angstrom Structure Of The Thermophilic Exonuclease Iii
Homologue Mth0212
pdb|3G0A|A Chain A, Mth0212 With Two Bound Manganese Ions
pdb|3G1K|A Chain A, Mth0212 (Wt) Crystallized In A Monoclinic Space Group
pdb|3G1K|B Chain B, Mth0212 (Wt) Crystallized In A Monoclinic Space Group
pdb|3G2C|A Chain A, Mth0212 In Complex With A Short Ssdna (Cgta)
pdb|3G2C|B Chain B, Mth0212 In Complex With A Short Ssdna (Cgta)
pdb|3G3C|A Chain A, Mth0212 (Wt) In Complex With A 6bp Dsdna Containing A
Single One Nucleotide Long 3'-Overhang
pdb|3G3C|B Chain B, Mth0212 (Wt) In Complex With A 6bp Dsdna Containing A
Single One Nucleotide Long 3'-Overhang
pdb|3G3Y|A Chain A, Mth0212 In Complex With Ssdna In Space Group P32
pdb|3G3Y|B Chain B, Mth0212 In Complex With Ssdna In Space Group P32
pdb|3G4T|A Chain A, Mth0212 (Wt) In Complex With A 7bp Dsdna
pdb|3G4T|B Chain B, Mth0212 (Wt) In Complex With A 7bp Dsdna
Length = 265
Score = 82.0 bits (201), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 75/306 (24%), Positives = 131/306 (42%), Gaps = 60/306 (19%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
LK ++WN N L + F + PD++ LQE++ A + P+ + ++
Sbjct: 4 LKIISWNVNGLRAVHRKG---FLKWFMEEKPDILCLQEIK---AAPEQLPRKLRHVE--- 54
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSK-YAGTALLVKKCFQPKKVSFSLEKTALK 160
Y+ +++ A+ K Y+G A+ K + F +E+
Sbjct: 55 --------------------GYRSFFTPAERKGYSGVAMYTKVPPSSLREGFGVER---- 90
Query: 161 YEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQC-SGKPLIWC 219
++ +GR+ +A+F+ F L N Y PN EE + + +D +++ + SG+ +I C
Sbjct: 91 FDTEGRIQIADFDDFLLYNIYFPNGKMSEERLKY-KLEFYDAFLEDVNRERDSGRNVIIC 149
Query: 220 GDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAY 279
GD N +H EID++ P KE+ GF ER ++ G +D +
Sbjct: 150 GDFNTAHREIDLARP---------------KENSNVSGFLPVERAWIDKFIENG-YVDTF 193
Query: 280 RFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYG 339
R + + WS + R R+DYF V+EE K ++ + L G
Sbjct: 194 RMFNSDPGQYTW--WSYRTRARERNVGWRLDYFFVNEEFKGKVKRSWI------LSDVMG 245
Query: 340 SDHCPV 345
SDHCP+
Sbjct: 246 SDHCPI 251
>pdb|3G00|A Chain A, Mth0212 In Complex With A 9bp Blunt End Dsdna At 1.7
Angstrom
pdb|3G00|B Chain B, Mth0212 In Complex With A 9bp Blunt End Dsdna At 1.7
Angstrom
pdb|3G0R|A Chain A, Complex Of Mth0212 And An 8bp Dsdna With Distorted Ends
pdb|3G0R|B Chain B, Complex Of Mth0212 And An 8bp Dsdna With Distorted Ends
pdb|3G2D|A Chain A, Complex Of Mth0212 And A 4 Bp Dsdna With 3'-Overhang
pdb|3G2D|B Chain B, Complex Of Mth0212 And A 4 Bp Dsdna With 3'-Overhang
pdb|3G38|A Chain A, The Catalytically Inactive Mutant Mth0212 (D151n) In
Complex With An 8 Bp Dsdna
pdb|3G8V|A Chain A, The Rationally Designed Catalytically Inactive Mutant
Mth0212(D151n)
pdb|3GA6|A Chain A, Mth0212 In Complex With Two Dna Helices
pdb|3GA6|B Chain B, Mth0212 In Complex With Two Dna Helices
Length = 265
Score = 80.5 bits (197), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 74/306 (24%), Positives = 131/306 (42%), Gaps = 60/306 (19%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
LK ++WN N L + F + PD++ LQE++ A + P+ + ++
Sbjct: 4 LKIISWNVNGLRAVHRKG---FLKWFMEEKPDILCLQEIK---AAPEQLPRKLRHVE--- 54
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSK-YAGTALLVKKCFQPKKVSFSLEKTALK 160
Y+ +++ A+ K Y+G A+ K + F +E+
Sbjct: 55 --------------------GYRSFFTPAERKGYSGVAMYTKVPPSSLREGFGVER---- 90
Query: 161 YEPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQC-SGKPLIWC 219
++ +GR+ +A+F+ F L N Y PN EE + + +D +++ + SG+ +I C
Sbjct: 91 FDTEGRIQIADFDDFLLYNIYFPNGKMSEERLKY-KLEFYDAFLEDVNRERDSGRNVIIC 149
Query: 220 GDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAY 279
G+ N +H EID++ P KE+ GF ER ++ G +D +
Sbjct: 150 GNFNTAHREIDLARP---------------KENSNVSGFLPVERAWIDKFIENG-YVDTF 193
Query: 280 RFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYG 339
R + + WS + R R+DYF V+EE K ++ + L G
Sbjct: 194 RMFNSDPGQYTW--WSYRTRARERNVGWRLDYFFVNEEFKGKVKRSWI------LSDVMG 245
Query: 340 SDHCPV 345
SDHCP+
Sbjct: 246 SDHCPI 251
>pdb|2JC4|A Chain A, 3'-5' Exonuclease (Nexo) From Neisseria Meningitidis
Length = 256
Score = 64.7 bits (156), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 77/310 (24%), Positives = 124/310 (40%), Gaps = 66/310 (21%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
+K TWN NSL +R+ P+ N + PD++ LQE+++ D
Sbjct: 1 MKITTWNVNSLNVRL----PQVQNLLADNPPDILVLQELKL-----------------DQ 39
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKY 161
L +M + WS Y G A++ + P+ V F L AL
Sbjct: 40 DKFPAAALQMM---------GWHCVWS-GQKTYNGVAIVSRSV--PQDVHFGL--PALPD 85
Query: 162 EPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFV---LQCSGKPLIW 218
+P RVI A ++N Y NG + F+ + +W + EFV + GK L+
Sbjct: 86 DPQRRVIAATVSGVRVINVYC-VNGEALDSPKFKYKEQWFAALTEFVRDEMTRHGK-LVL 143
Query: 219 CGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQP-GFTIAERKRFGAILKEGRLID 277
GD N++ + D P E W + + ER+ F +L G L D
Sbjct: 144 LGDFNIAPADADCYDP----------------EKWHEKIHCSSVERQWFQNLLDLG-LTD 186
Query: 278 AYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRI--IACEMQGHGIELE 335
+ R +H E F + G + G +RID+ +VS + + + +++ +E
Sbjct: 187 SLRQVHPEGAFYTWFDYRGAMFQRKLG--LRIDHILVSPAMAAALKDVRVDLETRALE-- 242
Query: 336 GFYGSDHCPV 345
SDH PV
Sbjct: 243 --RPSDHAPV 250
>pdb|2J63|A Chain A, Crystal Structure Of Ap Endonuclease Lmap From Leishmania
Major
pdb|2J63|B Chain B, Crystal Structure Of Ap Endonuclease Lmap From Leishmania
Major
Length = 467
Score = 60.1 bits (144), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 79/333 (23%), Positives = 117/333 (35%), Gaps = 55/333 (16%)
Query: 43 KFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDTK 102
KF+TWN L +K N F+ PDV+ LQE ++ +A N D
Sbjct: 151 KFITWNVAGLRGLLKKNASALRAFMEAEKPDVLCLQETKL---NVDEADANATLGVVDGY 207
Query: 103 ASREEKLILMRALSSPP--FKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALK 160
+ + R S KN L G AL + S L + A
Sbjct: 208 SFVDHPCAFKRGYSGTRTYMKNSTTVKGLHARCTRGFALPSEPQADAAAGSRVLVEGAGD 267
Query: 161 YEPDGRVILAEFET----------FYLLNTYAPNNGWKEEENSFQRR------RKWDKRI 204
E GRV+ L+NTY N+G ++ + R++ R+
Sbjct: 268 EE--GRVLTTFLSPDPDSASSSSRIALVNTYVANSGMGLTRLPYRVQSFDPSMREYLHRL 325
Query: 205 QEFVLQCSGKP-------------LIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKE 251
+ + + P IW GDLNV+ + D + F K
Sbjct: 326 DTWATENAAVPSAAAMGSGSSPHGFIWAGDLNVAERDYDRYYAGTF------------KS 373
Query: 252 DWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDY 311
GF ER F ++ +D +R L+ + F WS G+ R R+DY
Sbjct: 374 MQECSGFAPEERMSFRETMQRTNSVDIFRQLYPQAGPVYSF-WSQRINGRPRNLGWRLDY 432
Query: 312 FIVSEELKDRIIACEMQGHGIELEGFYGSDHCP 344
F+VS L ++ C + GSDHCP
Sbjct: 433 FVVSSRLASYVVDC------FPMPTVMGSDHCP 459
>pdb|2JC5|A Chain A, Apurinic Apyrimidinic (Ap) Endonuclease (Nape) From
Neisseria Meningitidis
pdb|4B5F|A Chain A, Substrate Bound Neisseria Ap Endonuclease In Absence Of
Metal Ions (Crystal Form 1)
pdb|4B5G|A Chain A, Substrate Bound Neisseria Ap Endonuclease In Absence Of
Metal Ions (Crystal Form 2)
pdb|4B5G|B Chain B, Substrate Bound Neisseria Ap Endonuclease In Absence Of
Metal Ions (Crystal Form 2)
pdb|4B5G|C Chain C, Substrate Bound Neisseria Ap Endonuclease In Absence Of
Metal Ions (Crystal Form 2)
pdb|4B5I|A Chain A, Product Complex Of Neisseria Ap Endonuclease In Presence
Of Metal Ions
pdb|4B5J|A Chain A, Neisseria Ap Endonuclease Bound To The Substrate With An
Orphan Adenine Base
pdb|4B5M|A Chain A, Neisseria Ap Endonuclease Bound To The Substrate With A
Cytosine Orphan Base
pdb|4B5M|B Chain B, Neisseria Ap Endonuclease Bound To The Substrate With A
Cytosine Orphan Base
pdb|4B5M|C Chain C, Neisseria Ap Endonuclease Bound To The Substrate With A
Cytosine Orphan Base
Length = 259
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 64/305 (20%), Positives = 123/305 (40%), Gaps = 57/305 (18%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
LK ++ N N + K F +I D++ +QE++ A +L D
Sbjct: 2 LKIISANVNGIRSAYKKG---FYEYIAASGADIVCVQELKAQEA----------DLSADM 48
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKY 161
K P + W Y+G A+ K+ ++ +E+ +
Sbjct: 49 K---------------NPHGMHGHWHCAEKRGYSGVAVYSKRKPDNVQIGMGIEE----F 89
Query: 162 EPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGD 221
+ +GR + +F +++ Y P+ EE + R ++ G+ ++ CGD
Sbjct: 90 DREGRFVRCDFGRLSVISLYLPSGSSAEERQQVKYRFLDAFYPMLEAMKNEGRDIVVCGD 149
Query: 222 LNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRF 281
N++H+ ID+ + + K +G++P ER+ G ++ + D +R
Sbjct: 150 WNIAHQNIDLKN--WKGNQKNSGFLPE-------------EREWIGKVIHKLGWTDMWRT 194
Query: 282 LHKEKDMDCGFSWSGNPIGKY-RGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGS 340
L+ + G++W N Y + RIDY +V+ EL + ++ H + E F S
Sbjct: 195 LYPDVP---GYTWWSNRGQAYAKDVGWRIDYQMVTPELAAKAVSA----HVYKDEKF--S 245
Query: 341 DHCPV 345
DH P+
Sbjct: 246 DHAPL 250
>pdb|2VOA|A Chain A, Structure Of An Ap Endonuclease From Archaeoglobus
Fulgidus
pdb|2VOA|B Chain B, Structure Of An Ap Endonuclease From Archaeoglobus
Fulgidus
Length = 257
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 48/184 (26%), Positives = 85/184 (46%), Gaps = 27/184 (14%)
Query: 146 QPKKVSFSLEKTALKYEP--DGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKR 203
+P+ VSF L+ EP + R+I A+ ++NTY P G+K + +Q + +W +R
Sbjct: 73 EPEDVSFGLDS-----EPKDEDRLIRAKIAGIDVINTYVPQ-GFKIDSEKYQYKLQWLER 126
Query: 204 IQEFVLQCSG--KPLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIA 261
+ ++ + +WCGD+NV+ E IDV P+ KL +V F
Sbjct: 127 LYHYLQKTVDFRSFAVWCGDMNVAPEPIDVHSPD-----KLKNHV----------XFHED 171
Query: 262 ERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDR 321
R+ + IL+ G +D R +H + + + + + RG R D + + L +R
Sbjct: 172 ARRAYKKILELG-FVDVLRKIHPNERIYTFYDYRVKGAIE-RGLGWRGDAILATPPLAER 229
Query: 322 IIAC 325
+ C
Sbjct: 230 CVDC 233
>pdb|4B5H|A Chain A, Substate Bound Inactive Mutant Of Neisseria Ap
Endonuclease In Presence Of Metal Ions
Length = 259
Score = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 63/305 (20%), Positives = 123/305 (40%), Gaps = 57/305 (18%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
LK ++ N N + K F +I D++ +QE++ A +L D
Sbjct: 2 LKIISANVNGIRSAYKKG---FYEYIAASGTDIVCVQELKAQEA----------DLSADM 48
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKY 161
K P + W Y+G A+ K+ ++ +E+ +
Sbjct: 49 K---------------NPHGMHGHWHCAEKRGYSGVAVYSKRKPDNVQIGMGIEE----F 89
Query: 162 EPDGRVILAEFETFYLLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGD 221
+ +GR + +F +++ Y P+ EE + R ++ G+ ++ CG+
Sbjct: 90 DREGRFVRCDFGRLSVISLYLPSGSSAEERQQVKYRFLDAFYPMLEAMKNEGRDIVVCGN 149
Query: 222 LNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRF 281
N++H+ ID+ + + K +G++P ER+ G ++ + D +R
Sbjct: 150 WNIAHQNIDLKN--WKGNQKNSGFLPE-------------EREWIGKVIHKLGWTDMWRT 194
Query: 282 LHKEKDMDCGFSWSGNPIGKY-RGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGS 340
L+ + G++W N Y + RIDY +V+ EL + ++ H + E F S
Sbjct: 195 LYPDVP---GYTWWSNRGQAYAKDVGWRIDYQMVTPELAAKAVSA----HVYKDEKF--S 245
Query: 341 DHCPV 345
DH P+
Sbjct: 246 DHAPL 250
>pdb|1AKO|A Chain A, Exonuclease Iii From Escherichia Coli
Length = 268
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 73/316 (23%), Positives = 121/316 (38%), Gaps = 66/316 (20%)
Query: 42 LKFVTWNANSLLLRVKNNWPEFSNFITTFDPDVIALQEVRMPAAGSKDAPKNHQELKDDT 101
+KFV++N N L R + + PDVI LQE + + DD
Sbjct: 1 MKFVSFNINGLRARPH----QLEAIVEKHQPDVIGLQETK---------------VHDD- 40
Query: 102 KASREEKLILMRALSSPPFKNYQIWWSLADSKYAGTALLVKKCFQPKKVSFSLEKTALKY 161
M L Y +++ Y G ALL K+ + F +
Sbjct: 41 ----------MFPLEEVAKLGYNVFYHGQKGHY-GVALLTKETPIAVRRGFPGDDE---- 85
Query: 162 EPDGRVILAEFETFY----LLNTYAPNNGWKEEENSFQRRRKWDKRIQEFVLQCSGK--- 214
E R+I+AE + ++N Y P ++ F + ++ + +Q + L+ K
Sbjct: 86 EAQRRIIMAEIPSLLGNVTVINGYFPQGESRDHPIKFPAKAQFYQNLQNY-LETELKRDN 144
Query: 215 PLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKEDW---GQPGFTIAERKRFGAILK 271
P++ GD+N+S ++D+ G N++ W G+ F ER+ ++
Sbjct: 145 PVLIMGDMNISPTDLDI------------GIGEENRKRWLRTGKCSFLPEEREWMDRLMS 192
Query: 272 EGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKR-MRIDYFIVSEELKDRIIACEMQGH 330
G L+D +R H FSW + R +RID + S+ L + C G
Sbjct: 193 WG-LVDTFR--HANPQTADRFSWFDYRSKGFDDNRGLRIDLLLASQPLAE---CCVETGI 246
Query: 331 GIELEGFYG-SDHCPV 345
E+ SDH PV
Sbjct: 247 DYEIRSMEKPSDHAPV 262
>pdb|4F1R|A Chain A, Structure Analysis Of The Global Metabolic Regulator Crc
From Pseudomonas Aeruginos
Length = 293
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 41/163 (25%), Positives = 67/163 (41%), Gaps = 28/163 (17%)
Query: 135 AGTALLVKKCFQPKKVSFSLE-KTALKYEPDGRVILAEFETFYLLNTYAPNNGWKEEENS 193
G AL + QPK V L +TA +Y GR + A+F+ + P+ + + S
Sbjct: 100 GGVALYSR--LQPKAVISGLGFETADRY---GRYLQADFDKVSIATLLLPSG--QSGDES 152
Query: 194 FQRRRKWDKRIQEFVLQCSGK--PLIWCGDLNVSHEEIDVSHPEFFAAAKLNGYVPPNKE 251
++ K+ ++ + K I+CG L V+H+++DV + +E
Sbjct: 153 LNQKFKFMDDFTHYLSKQRRKRREYIYCGSLYVAHQKMDVKNW---------------RE 197
Query: 252 DWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFSW 294
PGF ER + DA R + +E D FSW
Sbjct: 198 CQQMPGFLAPERAWLDEVFGNLGYADALREVSREGDQ---FSW 237
>pdb|1VYB|A Chain A, Endonuclease Domain Of Human Line1 Orf2p
pdb|1VYB|B Chain B, Endonuclease Domain Of Human Line1 Orf2p
Length = 238
Score = 31.2 bits (69), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 54/232 (23%), Positives = 85/232 (36%), Gaps = 69/232 (29%)
Query: 124 QIWWSLADSKYAGTALLV--KKCFQPKKVSFSLEKTALKYEPDGRVILA----EFETFYL 177
+I+ + K AG A+LV K F+P K+ K + +G I+ + E +
Sbjct: 61 KIYQANGKQKKAGVAILVSDKTDFKPTKI---------KRDKEGHYIMVKGSIQQEELTI 111
Query: 178 LNTYAPNNG----WKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSH 233
LN YAPN G K+ + QR LI GD N +D S
Sbjct: 112 LNIYAPNTGAPRFIKQVLSDLQR-------------DLDSHTLIM-GDFNTPLSTLDRS- 156
Query: 234 PEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFS 293
K+N + + + L + LID YR LH + ++
Sbjct: 157 ----TRQKVN-----------------KDTQELNSALHQADLIDIYRTLHPK---STEYT 192
Query: 294 WSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPV 345
+ P Y +ID+ + S+ L + C+ E+ Y SDH +
Sbjct: 193 FFSAPHHTYS----KIDHIVGSKALLSK---CKRT----EIITNYLSDHSAI 233
>pdb|2V0R|A Chain A, Crystal Structure Of A Hairpin Exchange Variant (Ltx) Of
The Targeting Line-1 Retrotransposon Endonuclease
pdb|2V0R|B Chain B, Crystal Structure Of A Hairpin Exchange Variant (Ltx) Of
The Targeting Line-1 Retrotransposon Endonuclease
Length = 240
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 33/69 (47%), Gaps = 15/69 (21%)
Query: 124 QIWWSLADSKYAGTALLV--KKCFQPKKVSFSLEKTALKYEPDGRVILA----EFETFYL 177
+I+ + K AG A+LV K F+P K+ K + +G I+ + E +
Sbjct: 61 KIYQANGKQKKAGVAILVSDKTDFKPTKI---------KRDKEGHYIMVKGSIQQEELTI 111
Query: 178 LNTYAPNNG 186
LN YAPN G
Sbjct: 112 LNIYAPNTG 120
>pdb|2V0S|A Chain A, Crystal Structure Of A Hairpin Exchange Variant (Lr1) Of
The Targeting Line-1 Retrotransposon Endonuclease
Length = 236
Score = 31.2 bits (69), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 55/232 (23%), Positives = 85/232 (36%), Gaps = 71/232 (30%)
Query: 124 QIWWSLADSKYAGTALLV--KKCFQPKKVSFSLEKTALKYEPDGRVILA----EFETFYL 177
+I+ + K AG A+LV K F+P K+ K + +G I+ + E +
Sbjct: 61 KIYQANGKQKKAGVAILVSDKTDFKPTKI---------KRDKEGHYIMVKGSIQQEELTI 111
Query: 178 LNTYAPNNG----WKEEENSFQRRRKWDKRIQEFVLQCSGKPLIWCGDLNVSHEEIDVSH 233
LN YAPN G K+ + QR LI GD N +D S
Sbjct: 112 LNIYAPNTGAPRFIKQVLSDLQR-------------DLDSHTLIM-GDFNTPLSTLDRST 157
Query: 234 PEFFAAAKLNGYVPPNKEDWGQPGFTIAERKRFGAILKEGRLIDAYRFLHKEKDMDCGFS 293
+ K+N + + + L + LID YR LH K + FS
Sbjct: 158 RQ-----KVN-----------------KDTQELNSALHQADLIDIYRTLH-PKSTEYTFS 194
Query: 294 WSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGFYGSDHCPV 345
+ +ID+ + S+ L + C+ E+ Y SDH +
Sbjct: 195 TANG--------ESKIDHIVGSKALLSK---CKRT----EIITNYLSDHSAI 231
>pdb|3AEV|A Chain A, Crystal Structure Of AEIF2ALPHA-Adim2p-Rrna Complex From
Pyrococcus Horikoshii Ot3
Length = 275
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 3/52 (5%)
Query: 269 ILKEGRLIDAYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKD 320
I+KE LI A +KEKD++ F++ G P +YR DY+ E L+D
Sbjct: 194 IIKEA-LIRARDRANKEKDIEVKFTYQGAP--RYRIDITAPDYYKAEEVLED 242
>pdb|1FWK|A Chain A, Crystal Structure Of Homoserine Kinase Complexed With Adp
pdb|1FWK|B Chain B, Crystal Structure Of Homoserine Kinase Complexed With Adp
pdb|1FWK|C Chain C, Crystal Structure Of Homoserine Kinase Complexed With Adp
pdb|1FWK|D Chain D, Crystal Structure Of Homoserine Kinase Complexed With Adp
pdb|1FWL|A Chain A, Crystal Structure Of Homoserine Kinase
pdb|1FWL|B Chain B, Crystal Structure Of Homoserine Kinase
pdb|1FWL|C Chain C, Crystal Structure Of Homoserine Kinase
pdb|1FWL|D Chain D, Crystal Structure Of Homoserine Kinase
pdb|1H72|C Chain C, Crystal Structure Of Homoserine Kinase Complexed With Hse
pdb|1H74|A Chain A, Crystal Structure Of Homoserine Kinase Complexed With Ile
pdb|1H74|B Chain B, Crystal Structure Of Homoserine Kinase Complexed With Ile
pdb|1H74|C Chain C, Crystal Structure Of Homoserine Kinase Complexed With Ile
pdb|1H74|D Chain D, Crystal Structure Of Homoserine Kinase Complexed With Ile
pdb|1H73|A Chain A, Crystal Structure Of Homoserine Kinase Complexed With
Threonine
Length = 296
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 29/60 (48%), Gaps = 1/60 (1%)
Query: 278 AYRFLHKEKDMDCGFSWSGNPIGKYRGKRMRIDYFIVSEELKDRIIACEMQGHGIELEGF 337
Y +K+K + + S I RGK + +YF + EE+KD++ + G G + F
Sbjct: 206 VYALYNKDKSLFGRYMMSDKVIEPVRGKLIP-NYFKIKEEVKDKVYGITISGSGPSIIAF 264
>pdb|1ZH8|A Chain A, Crystal Structure Of Oxidoreductase (tm0312) From
Thermotoga Maritima At 2.50 A Resolution
pdb|1ZH8|B Chain B, Crystal Structure Of Oxidoreductase (tm0312) From
Thermotoga Maritima At 2.50 A Resolution
Length = 340
Score = 28.1 bits (61), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 5/70 (7%)
Query: 105 REEKLILMRALSSPPFKNYQIWWSL-ADSKYAGTALLVKKCFQPKKVSFSLEKTALKYEP 163
+ ++L+ A+ P F N+QIW ++KY T K PK V L + +
Sbjct: 150 KAKELVESGAIGDPVFXNWQIWVGXDENNKYVHTDWRKK----PKHVGGFLSDGGVHHAA 205
Query: 164 DGRVILAEFE 173
R+IL E E
Sbjct: 206 AXRLILGEIE 215
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
0.320 0.137 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,663,273
Number of Sequences: 62578
Number of extensions: 455512
Number of successful extensions: 864
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 818
Number of HSP's gapped (non-prelim): 25
length of query: 366
length of database: 14,973,337
effective HSP length: 100
effective length of query: 266
effective length of database: 8,715,537
effective search space: 2318332842
effective search space used: 2318332842
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)