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= 041466
(824 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4E4W|B Chain B, Structure Of The C-terminal Domain Of The Saccharomyces
Cerevisiae Mutl Alpha (mlh1/pms1) Heterodimer
Length = 239
Score = 177 bits (450), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 92/204 (45%), Positives = 131/204 (64%), Gaps = 14/204 (6%)
Query: 611 KEDFGRMKVIGQFNLGFII--GKLDQ--DLFIVDQHAADEKYNFERLSQSTVLNQQPLLR 666
K DF +M+V+GQFNLGFII K+D DLFIVDQHA+DEKYNFE L TV Q L+
Sbjct: 34 KNDFKKMEVVGQFNLGFIIVTRKVDNKYDLFIVDQHASDEKYNFETLQAVTVFKSQKLII 93
Query: 667 PLKLDLTPEEEVVASMHMDIIRKNGFSLEEDPHALAGLRFRLKAVPFSKKITFGVEDVKD 726
P ++L+ +E+V ++ + KNGF L+ D G R +L ++P SK+ F + D +
Sbjct: 94 PQPVELSVIDELVVLDNLPVFEKNGFKLKIDEEEEFGSRVKLLSLPTSKQTLFDLGDFNE 153
Query: 727 LISTLADNQGECSIISSYKMDTADSVCPSRVRAMLASRACRSSIMIGDALGRNEMQKILE 786
LI + ++ G D++ S++R+M A RACRSSIMIG L + M +++
Sbjct: 154 LIHLIKEDGGL----------RRDNIRCSKIRSMFAMRACRSSIMIGKPLNKKTMTRVVH 203
Query: 787 HLADLNSPWNCPHGRPTMRHLVDL 810
+L++L+ PWNCPHGRPTMRHL++L
Sbjct: 204 NLSELDKPWNCPHGRPTMRHLMEL 227
>pdb|4FMN|B Chain B, Structure Of The C-terminal Domain Of The Saccharomyces
Cerevisiae Mutl Alpha (mlh1/pms1) Heterodimer Bound To A
Fragment Of Ntg2
pdb|4FMO|B Chain B, Structure Of The C-terminal Domain Of The Saccharomyces
Cerevisiae Mutl Alpha (mlh1/pms1) Heterodimer Bound To A
Fragment Of Exo1
Length = 240
Score = 177 bits (449), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 92/204 (45%), Positives = 131/204 (64%), Gaps = 14/204 (6%)
Query: 611 KEDFGRMKVIGQFNLGFII--GKLDQ--DLFIVDQHAADEKYNFERLSQSTVLNQQPLLR 666
K DF +M+V+GQFNLGFII K+D DLFIVDQHA+DEKYNFE L TV Q L+
Sbjct: 35 KNDFKKMEVVGQFNLGFIIVTRKVDNKYDLFIVDQHASDEKYNFETLQAVTVFKSQKLII 94
Query: 667 PLKLDLTPEEEVVASMHMDIIRKNGFSLEEDPHALAGLRFRLKAVPFSKKITFGVEDVKD 726
P ++L+ +E+V ++ + KNGF L+ D G R +L ++P SK+ F + D +
Sbjct: 95 PQPVELSVIDELVVLDNLPVFEKNGFKLKIDEEEEFGSRVKLLSLPTSKQTLFDLGDFNE 154
Query: 727 LISTLADNQGECSIISSYKMDTADSVCPSRVRAMLASRACRSSIMIGDALGRNEMQKILE 786
LI + ++ G D++ S++R+M A RACRSSIMIG L + M +++
Sbjct: 155 LIHLIKEDGGL----------RRDNIRCSKIRSMFAMRACRSSIMIGKPLNKKTMTRVVH 204
Query: 787 HLADLNSPWNCPHGRPTMRHLVDL 810
+L++L+ PWNCPHGRPTMRHL++L
Sbjct: 205 NLSELDKPWNCPHGRPTMRHLMEL 228
>pdb|1H7S|A Chain A, N-Terminal 40kda Fragment Of Human Pms2
pdb|1H7S|B Chain B, N-Terminal 40kda Fragment Of Human Pms2
Length = 365
Score = 121 bits (303), Expect = 2e-27, Method: Compositional matrix adjust.
Identities = 68/177 (38%), Positives = 98/177 (55%), Gaps = 17/177 (9%)
Query: 80 RAVFLCQAYALIAKGVRFVCTNTTGKNVKSVVLKTQGSSSLKDNIITVFGMNIYNCLEP- 138
+ V + AY +I+ G+R CTN G+ + V+ T GS S+K+NI +VFG L P
Sbjct: 183 KXVQVLHAYCIISAGIRVSCTNQLGQGKRQPVVCTGGSPSIKENIGSVFGQKQLQSLIPF 242
Query: 139 VAICKSDS-CK---------------VEGFLSKPGQGSGRNLGDRQYFFVNDRPVDLPKV 182
V + SDS C+ + GF+S+ G GR+ DRQ+FF+N RP D KV
Sbjct: 243 VQLPPSDSVCEEYGLSCSDALHNLFYISGFISQCTHGVGRSSTDRQFFFINRRPCDPAKV 302
Query: 183 SKLVNELYKGANSRQYPIAIMNFIVPTRACDVNVTPDKRKVFFSDECSILHALREGL 239
+LVNE+Y N QYP ++N V + D+NVTPDKR++ +E +L L+ L
Sbjct: 303 CRLVNEVYHXYNRHQYPFVVLNISVDSECVDINVTPDKRQILLQEEKLLLAVLKTSL 359
Score = 90.5 bits (223), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 40/67 (59%), Positives = 55/67 (82%)
Query: 12 IRPINKGVVHRICAGQVIKDLSSAVKELVENSLDAGATSIEIALKEYGEEWFQVVDNGCG 71
I+PI++ VH+IC+GQV+ LS+AVKELVENSLDAGAT+I++ LK+YG + +V DNGCG
Sbjct: 15 IKPIDRKSVHQICSGQVVLSLSTAVKELVENSLDAGATNIDLKLKDYGVDLIEVSDNGCG 74
Query: 72 ISPNNFK 78
+ NF+
Sbjct: 75 VEEENFE 81
>pdb|1H7U|A Chain A, Hpms2-atpgs
pdb|1H7U|B Chain B, Hpms2-atpgs
Length = 365
Score = 120 bits (302), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 68/181 (37%), Positives = 100/181 (55%), Gaps = 17/181 (9%)
Query: 80 RAVFLCQAYALIAKGVRFVCTNTTGKNVKSVVLKTQGSSSLKDNIITVFGMNIYNCLEP- 138
+ V + AY +I+ G+R CTN G+ + V+ T GS S+K+NI +VFG L P
Sbjct: 183 KMVQVLHAYCIISAGIRVSCTNQLGQGKRQPVVCTGGSPSIKENIGSVFGQKQLQSLIPF 242
Query: 139 VAICKSDS-CK---------------VEGFLSKPGQGSGRNLGDRQYFFVNDRPVDLPKV 182
V + SDS C+ + GF+S+ G GR+ DRQ+FF+N RP D KV
Sbjct: 243 VQLPPSDSVCEEYGLSCSDALHNLFYISGFISQCTHGVGRSSTDRQFFFINRRPCDPAKV 302
Query: 183 SKLVNELYKGANSRQYPIAIMNFIVPTRACDVNVTPDKRKVFFSDECSILHALREGLQEI 242
+LVNE+Y N QYP ++N V + D+NVTPDKR++ +E +L L+ L +
Sbjct: 303 CRLVNEVYHMYNRHQYPFVVLNISVDSECVDINVTPDKRQILLQEEKLLLAVLKTSLIGM 362
Query: 243 Y 243
+
Sbjct: 363 F 363
Score = 90.5 bits (223), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/67 (59%), Positives = 55/67 (82%)
Query: 12 IRPINKGVVHRICAGQVIKDLSSAVKELVENSLDAGATSIEIALKEYGEEWFQVVDNGCG 71
I+PI++ VH+IC+GQV+ LS+AVKELVENSLDAGAT+I++ LK+YG + +V DNGCG
Sbjct: 15 IKPIDRKSVHQICSGQVVLSLSTAVKELVENSLDAGATNIDLKLKDYGVDLIEVSDNGCG 74
Query: 72 ISPNNFK 78
+ NF+
Sbjct: 75 VEEENFE 81
>pdb|1EA6|A Chain A, N-Terminal 40kda Fragment Of Nhpms2 Complexed With Adp
pdb|1EA6|B Chain B, N-Terminal 40kda Fragment Of Nhpms2 Complexed With Adp
Length = 364
Score = 120 bits (301), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 68/181 (37%), Positives = 100/181 (55%), Gaps = 17/181 (9%)
Query: 80 RAVFLCQAYALIAKGVRFVCTNTTGKNVKSVVLKTQGSSSLKDNIITVFGMNIYNCLEP- 138
+ V + AY +I+ G+R CTN G+ + V+ T GS S+K+NI +VFG L P
Sbjct: 183 KMVQVLHAYCIISAGIRVSCTNQLGQGKRQPVVCTGGSPSIKENIGSVFGQKQLQSLIPF 242
Query: 139 VAICKSDS-CK---------------VEGFLSKPGQGSGRNLGDRQYFFVNDRPVDLPKV 182
V + SDS C+ + GF+S+ G GR+ DRQ+FF+N RP D KV
Sbjct: 243 VQLPPSDSVCEEYGLSCSDALHNLFYISGFISQCTHGVGRSSTDRQFFFINRRPCDPAKV 302
Query: 183 SKLVNELYKGANSRQYPIAIMNFIVPTRACDVNVTPDKRKVFFSDECSILHALREGLQEI 242
+LVNE+Y N QYP ++N V + D+NVTPDKR++ +E +L L+ L +
Sbjct: 303 CRLVNEVYHMYNRHQYPFVVLNISVDSECVDINVTPDKRQILLQEEKLLLAVLKTSLIGM 362
Query: 243 Y 243
+
Sbjct: 363 F 363
Score = 90.5 bits (223), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 40/67 (59%), Positives = 55/67 (82%)
Query: 12 IRPINKGVVHRICAGQVIKDLSSAVKELVENSLDAGATSIEIALKEYGEEWFQVVDNGCG 71
I+PI++ VH+IC+GQV+ LS+AVKELVENSLDAGAT+I++ LK+YG + +V DNGCG
Sbjct: 15 IKPIDRKSVHQICSGQVVLSLSTAVKELVENSLDAGATNIDLKLKDYGVDLIEVSDNGCG 74
Query: 72 ISPNNFK 78
+ NF+
Sbjct: 75 VEEENFE 81
>pdb|3H4L|A Chain A, Crystal Structure Of N Terminal Domain Of A Dna Repair
Prote
pdb|3H4L|B Chain B, Crystal Structure Of N Terminal Domain Of A Dna Repair
Prote
Length = 367
Score = 103 bits (258), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 59/183 (32%), Positives = 94/183 (51%), Gaps = 22/183 (12%)
Query: 84 LCQAYALIAKGVRFVCTNTTGKNVKSVVLKTQGSSSLKDNIITVFGMNIYNCLEPVAIC- 142
+ Q YA+I ++F N T K K+++L T +SS++ NI +VFG LE V +
Sbjct: 177 VIQGYAIINAAIKFSVWNITPKGKKNLILSTMRNSSMRKNISSVFGAGGMRGLEEVDLVL 236
Query: 143 ------------KSD---------SCKVEGFLSKPGQGSGRNLGDRQYFFVNDRPVDLPK 181
+D +V+G++S+ G GRN DRQ+ +VN RPV+
Sbjct: 237 DLNPFKNRMLGKYTDDPDFLDLDYKIRVKGYISQNSFGCGRNSKDRQFIYVNKRPVEYST 296
Query: 182 VSKLVNELYKGANSRQYPIAIMNFIVPTRACDVNVTPDKRKVFFSDECSILHALREGLQE 241
+ K NE+YK N+ Q+P +N +P DVNVTPDKR + +E +++ + L +
Sbjct: 297 LLKCCNEVYKTFNNVQFPAVFLNLELPMSLIDVNVTPDKRVILLHNERAVIDIFKTTLSD 356
Query: 242 IYS 244
Y+
Sbjct: 357 YYN 359
Score = 79.0 bits (193), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 39/71 (54%), Positives = 50/71 (70%)
Query: 12 IRPINKGVVHRICAGQVIKDLSSAVKELVENSLDAGATSIEIALKEYGEEWFQVVDNGCG 71
I IN VHRI +GQVI DL++AVKELV+NS+DA A IEI K+YG E + DNG G
Sbjct: 6 IHQINDIDVHRITSGQVITDLTTAVKELVDNSIDANANQIEIIFKDYGLESIECSDNGDG 65
Query: 72 ISPNNFKVRAV 82
I P+N++ A+
Sbjct: 66 IDPSNYEFLAL 76
>pdb|3NA3|A Chain A, Mutl Protein Homolog 1 Isoform 1 From Homo Sapiens
Length = 348
Score = 63.9 bits (154), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 30/68 (44%), Positives = 49/68 (72%)
Query: 12 IRPINKGVVHRICAGQVIKDLSSAVKELVENSLDAGATSIEIALKEYGEEWFQVVDNGCG 71
IR +++ VV+RI AG+VI+ ++A+KE++EN LDA +TSI++ +KE G + Q+ DNG G
Sbjct: 9 IRRLDETVVNRIAAGEVIQRPANAIKEMIENCLDAKSTSIQVIVKEGGLKLIQIQDNGTG 68
Query: 72 ISPNNFKV 79
I + +
Sbjct: 69 IRKEDLDI 76
Score = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 40/165 (24%), Positives = 77/165 (46%), Gaps = 10/165 (6%)
Query: 88 YALIAKGVRFVCTNTTGKNVKSVVLKTQGSSSLKDNIITVFGMNIYNCLEPVAIC--KSD 145
Y++ G+ F G+ V V +T ++S DNI ++FG + L + C K+
Sbjct: 184 YSVHNAGISF-SVKKQGETVADV--RTLPNASTVDNIRSIFGNAVSRELIEIG-CEDKTL 239
Query: 146 SCKVEGFLSKPGQGSGRNLGDRQYFFVNDRPVDLPKVSKLVNELYKGANSRQ-YPIAIMN 204
+ K+ G++S + + F+N R V+ + K + +Y + +P ++
Sbjct: 240 AFKMNGYISNANYSVKKCIF---LLFINHRLVESTSLRKAIETVYAAYLPKNTHPFLYLS 296
Query: 205 FIVPTRACDVNVTPDKRKVFFSDECSILHALREGLQEIYSPNNAS 249
+ + DVNV P K +V F E SIL +++ ++ +N+S
Sbjct: 297 LEISPQNVDVNVHPTKHEVHFLHEESILERVQQHIESKLLGSNSS 341
>pdb|1B62|A Chain A, Mutl Complexed With Adp
Length = 355
Score = 60.1 bits (144), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 43/61 (70%)
Query: 19 VVHRICAGQVIKDLSSAVKELVENSLDAGATSIEIALKEYGEEWFQVVDNGCGISPNNFK 78
+ ++I AG+V++ +S VKELVENSLDAGAT I+I ++ G + ++ DNGCGI +
Sbjct: 16 LANQIAAGEVVERPASVVKELVENSLDAGATRIDIDIERGGAKLIRIRDNGCGIKKDELA 75
Query: 79 V 79
+
Sbjct: 76 L 76
>pdb|1BKN|A Chain A, Crystal Structure Of An N-Terminal 40kd Fragment Of E.
Coli Dna Mismatch Repair Protein Mutl
pdb|1BKN|B Chain B, Crystal Structure Of An N-Terminal 40kd Fragment Of E.
Coli Dna Mismatch Repair Protein Mutl
Length = 352
Score = 60.1 bits (144), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 43/61 (70%)
Query: 19 VVHRICAGQVIKDLSSAVKELVENSLDAGATSIEIALKEYGEEWFQVVDNGCGISPNNFK 78
+ ++I AG+V++ +S VKELVENSLDAGAT I+I ++ G + ++ DNGCGI +
Sbjct: 13 LANQIAAGEVVERPASVVKELVENSLDAGATRIDIDIERGGAKLIRIRDNGCGIKKDELA 72
Query: 79 V 79
+
Sbjct: 73 L 73
>pdb|1B63|A Chain A, Mutl Complexed With Adpnp
pdb|1NHH|A Chain A, Crystal Structure Of N-Terminal 40kd Mutl Protein (Ln40)
Complex With Adpnp And One Rubidium
pdb|1NHI|A Chain A, Crystal Structure Of N-Terminal 40kd Mutl (Ln40) Complex
With Adpnp And One Potassium
Length = 333
Score = 59.7 bits (143), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 43/61 (70%)
Query: 19 VVHRICAGQVIKDLSSAVKELVENSLDAGATSIEIALKEYGEEWFQVVDNGCGISPNNFK 78
+ ++I AG+V++ +S VKELVENSLDAGAT I+I ++ G + ++ DNGCGI +
Sbjct: 12 LANQIAAGEVVERPASVVKELVENSLDAGATRIDIDIERGGAKLIRIRDNGCGIKKDELA 71
Query: 79 V 79
+
Sbjct: 72 L 72
>pdb|1NHJ|A Chain A, Crystal Structure Of N-Terminal 40kd MutlA100P MUTANT
PROTEIN COMPLEX With Adpnp And One Sodium
Length = 333
Score = 59.7 bits (143), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 43/61 (70%)
Query: 19 VVHRICAGQVIKDLSSAVKELVENSLDAGATSIEIALKEYGEEWFQVVDNGCGISPNNFK 78
+ ++I AG+V++ +S VKELVENSLDAGAT I+I ++ G + ++ DNGCGI +
Sbjct: 12 LANQIAAGEVVERPASVVKELVENSLDAGATRIDIDIERGGAKLIRIRDNGCGIKKDELA 71
Query: 79 V 79
+
Sbjct: 72 L 72
>pdb|3NCV|A Chain A, Ngol
pdb|3NCV|B Chain B, Ngol
Length = 220
Score = 58.9 bits (141), Expect = 1e-08, Method: Composition-based stats.
Identities = 47/181 (25%), Positives = 78/181 (43%), Gaps = 21/181 (11%)
Query: 627 FIIGKLDQDLFIVDQHAADEKYNFERL----SQSTVLNQQPLLRPLKLDLTPEEEVVASM 682
+I+ + + L ++D HAA E+ N+E++ ++ L Q LL P+ + EE +
Sbjct: 40 YILAQAEDSLLLIDMHAAAERVNYEKMKRQRQENGNLQSQHLLIPVTFAASHEECAALAD 99
Query: 683 HMDIIRKNGFSLEEDPHALAGLRFRLKAVPFSKKITFGVEDVKDLISTLADNQGECSIIS 742
H + + G L + + G ++A P + G DV +S D GE + +
Sbjct: 100 HAETLAGFGLELSD----MGGNTLAVRAAP----VMLGKSDV---VSLARDVLGELAQVG 148
Query: 743 SYKMDTADSVCPSRVRAMLASRACRSSIMIGDALGRNEMQKILEHLADLNSPWNCPHGRP 802
S S +LA+ +C SI G L EM +L + + C HGRP
Sbjct: 149 S------SQTIASHENRILATMSCHGSIRAGRRLTLPEMNALLRDMENTPRSNQCNHGRP 202
Query: 803 T 803
T
Sbjct: 203 T 203
>pdb|3GAB|A Chain A, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form I
pdb|3GAB|B Chain B, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form I
pdb|3GAB|C Chain C, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form I
pdb|3GAB|D Chain D, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form I
pdb|3KDG|A Chain A, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form
Ii
pdb|3KDG|B Chain B, C-Terminal Domain Of Bacillus Subtilis Mutl Crystal Form
Ii
pdb|3KDK|A Chain A, Structure Of The C-Terminal Domain Of Bacillus Subtilis
Mutl Bound To Zn2+
pdb|3KDK|B Chain B, Structure Of The C-Terminal Domain Of Bacillus Subtilis
Mutl Bound To Zn2+
Length = 197
Score = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 84/193 (43%), Gaps = 21/193 (10%)
Query: 617 MKVIGQFNLGFIIGKLDQDLFIVDQHAADEKYNFERLSQSTVLNQ---QPLLRPLKLDLT 673
M IGQ + +I+ + + L+I+DQHAA E+ +E + + Q ++ PL +
Sbjct: 9 MYPIGQMHGTYILAQNENGLYIIDQHAAQERIKYEYFREKVGEVEPEVQEMIVPLTFHYS 68
Query: 674 PEEEVVASMHMDIIRKNGFSLEEDPHALAGLRFRLKAVPFSKKITFGVEDVKDLISTLAD 733
E ++ H + G LE + + ++ P E ++++I + D
Sbjct: 69 TNEALIIEQHKQELESVGVFLE----SFGSNSYIVRCHPAWFPKGEEAELIEEIIQQVLD 124
Query: 734 NQGECSIISSYKMDTADSVCPSRVRAMLASRACRSSIMIGDALGRNEMQKILEHLADLNS 793
++ I K+ ++ S C+ SI L +E++ +L+ L +
Sbjct: 125 SKN----IDIKKLREEAAIMMS----------CKGSIKANRHLRNDEIKALLDDLRSTSD 170
Query: 794 PWNCPHGRPTMRH 806
P+ CPHGRP + H
Sbjct: 171 PFTCPHGRPIIIH 183
>pdb|1Z59|A Chain A, Topoisomerase Vi-B, Adp-Bound Monomer Form
pdb|1Z5C|A Chain A, Topoisomerase Vi-B, Adp Pi Bound Dimer Form
pdb|1Z5C|B Chain B, Topoisomerase Vi-B, Adp Pi Bound Dimer Form
Length = 469
Score = 35.8 bits (81), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 39/143 (27%), Positives = 58/143 (40%), Gaps = 29/143 (20%)
Query: 32 LSSAVKELVENSLDAGAT-------SIEIALKEYGEEWFQ--VVDNGCGISPNNFKVRAV 82
L V+EL+ENSLDA I I L + + ++ VVDNG GI P
Sbjct: 31 LYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIPPQE------ 84
Query: 83 FLCQAYALIAKGVRFVCTNTTGK---NVKSVVLKTQG---------SSSLKDNIITVFGM 130
+ A+ + ++V T G VK+ VL +Q +S + I F +
Sbjct: 85 -VPNAFGRVLYSSKYVNRQTRGXYGLGVKAAVLYSQXHQDKPIEIETSPVNSKRIYTFKL 143
Query: 131 NI-YNCLEPVAICKSDSCKVEGF 152
I N EP+ + + GF
Sbjct: 144 KIDINKNEPIIVERGSVENTRGF 166
>pdb|1MX0|A Chain A, Structure Of Topoisomerase Subunit
pdb|1MX0|B Chain B, Structure Of Topoisomerase Subunit
pdb|1MX0|C Chain C, Structure Of Topoisomerase Subunit
pdb|1MX0|D Chain D, Structure Of Topoisomerase Subunit
pdb|1MX0|E Chain E, Structure Of Topoisomerase Subunit
pdb|1MX0|F Chain F, Structure Of Topoisomerase Subunit
Length = 472
Score = 35.8 bits (81), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 39/143 (27%), Positives = 58/143 (40%), Gaps = 29/143 (20%)
Query: 32 LSSAVKELVENSLDAGAT-------SIEIALKEYGEEWFQ--VVDNGCGISPNNFKVRAV 82
L V+EL+ENSLDA I I L + + ++ VVDNG GI P
Sbjct: 34 LYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIPPQE------ 87
Query: 83 FLCQAYALIAKGVRFVCTNTTGK---NVKSVVLKTQG---------SSSLKDNIITVFGM 130
+ A+ + ++V T G VK+ VL +Q +S + I F +
Sbjct: 88 -VPNAFGRVLYSSKYVNRQTRGXYGLGVKAAVLYSQXHQDKPIEIETSPVNSKRIYTFKL 146
Query: 131 NI-YNCLEPVAICKSDSCKVEGF 152
I N EP+ + + GF
Sbjct: 147 KIDINKNEPIIVERGSVENTRGF 169
>pdb|1Z5A|A Chain A, Topoisomerase Vi-B, Adp-Bound Dimer Form
pdb|1Z5A|B Chain B, Topoisomerase Vi-B, Adp-Bound Dimer Form
pdb|1Z5B|A Chain A, Topoisomerase Vi-B, Adp Alf4- Bound Dimer Form
pdb|1Z5B|B Chain B, Topoisomerase Vi-B, Adp Alf4- Bound Dimer Form
pdb|2HKJ|A Chain A, Topoisomerase Vi-B Bound To Radicicol
Length = 469
Score = 35.0 bits (79), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 39/143 (27%), Positives = 58/143 (40%), Gaps = 29/143 (20%)
Query: 32 LSSAVKELVENSLDAGAT-------SIEIALKEYGEEWFQ--VVDNGCGISPNNFKVRAV 82
L V+EL+ENSLDA I I L + + ++ VVDNG GI P
Sbjct: 31 LYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIPPQE------ 84
Query: 83 FLCQAYALIAKGVRFVCTNTTGK---NVKSVVLKTQ---------GSSSLKDNIITVFGM 130
+ A+ + ++V T G VK+ VL +Q +S + I F +
Sbjct: 85 -VPNAFGRVLYSSKYVNRQTRGMYGLGVKAAVLYSQMHQDKPIEIETSPVNSKRIYTFKL 143
Query: 131 NI-YNCLEPVAICKSDSCKVEGF 152
I N EP+ + + GF
Sbjct: 144 KIDINKNEPIIVERGSVENTRGF 166
>pdb|1MU5|A Chain A, Structure Of Topoisomerase Subunit
Length = 471
Score = 35.0 bits (79), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 39/143 (27%), Positives = 58/143 (40%), Gaps = 29/143 (20%)
Query: 32 LSSAVKELVENSLDAGAT-------SIEIALKEYGEEWFQ--VVDNGCGISPNNFKVRAV 82
L V+EL+ENSLDA I I L + + ++ VVDNG GI P
Sbjct: 33 LYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIPPQE------ 86
Query: 83 FLCQAYALIAKGVRFVCTNTTGK---NVKSVVLKTQ---------GSSSLKDNIITVFGM 130
+ A+ + ++V T G VK+ VL +Q +S + I F +
Sbjct: 87 -VPNAFGRVLYSSKYVNRQTRGMYGLGVKAAVLYSQMHQDKPIEIETSPVNSKRIYTFKL 145
Query: 131 NI-YNCLEPVAICKSDSCKVEGF 152
I N EP+ + + GF
Sbjct: 146 KIDINKNEPIIVERGSVENTRGF 168
>pdb|2ZBK|B Chain B, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|D Chain D, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|F Chain F, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
pdb|2ZBK|H Chain H, Crystal Structure Of An Intact Type Ii Dna Topoisomerase:
Insights Into Dna Transfer Mechanisms
Length = 530
Score = 35.0 bits (79), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 39/143 (27%), Positives = 58/143 (40%), Gaps = 29/143 (20%)
Query: 32 LSSAVKELVENSLDAGAT-------SIEIALKEYGEEWFQ--VVDNGCGISPNNFKVRAV 82
L V+EL+ENSLDA I I L + + ++ VVDNG GI P
Sbjct: 32 LYQTVRELIENSLDATDVHGILPNIKITIDLIDDARQIYKVNVVDNGIGIPPQE------ 85
Query: 83 FLCQAYALIAKGVRFVCTNTTGK---NVKSVVLKTQ---------GSSSLKDNIITVFGM 130
+ A+ + ++V T G VK+ VL +Q +S + I F +
Sbjct: 86 -VPNAFGRVLYSSKYVNRQTRGMYGLGVKAAVLYSQMHQDKPIEIETSPVNSKRIYTFKL 144
Query: 131 NI-YNCLEPVAICKSDSCKVEGF 152
I N EP+ + + GF
Sbjct: 145 KIDINKNEPIIVERGSVENTRGF 167
>pdb|3OTT|A Chain A, Crystal Structure Of The Extracellular Domain Of The
Putative One Component System Bt4673 From B.
Thetaiotaomicron
pdb|3OTT|B Chain B, Crystal Structure Of The Extracellular Domain Of The
Putative One Component System Bt4673 From B.
Thetaiotaomicron
Length = 758
Score = 33.1 bits (74), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 3/47 (6%)
Query: 272 SCMFLEQLSPDGNGCIEIL--NEQQISKGNTPKTVEVDTLHSDALEG 316
S MF+ Q+ PD G + +L N + I K N P+T EV L +D L G
Sbjct: 470 SGMFINQIIPDNEGNVWVLLYNNKGIDKIN-PRTREVTKLFADELTG 515
>pdb|3VA6|A Chain A, Crystal Structure Of The Extracellular Domain Of The
Putative Hybrid Two Component System Bt4673 From B.
Thetaiotaomicron
pdb|3VA6|B Chain B, Crystal Structure Of The Extracellular Domain Of The
Putative Hybrid Two Component System Bt4673 From B.
Thetaiotaomicron
Length = 758
Score = 33.1 bits (74), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 27/47 (57%), Gaps = 3/47 (6%)
Query: 272 SCMFLEQLSPDGNGCIEIL--NEQQISKGNTPKTVEVDTLHSDALEG 316
S MF+ Q+ PD G + +L N + I K N P+T EV L +D L G
Sbjct: 470 SGMFINQIIPDNEGNVWVLLYNNKGIDKIN-PRTREVTKLFADELTG 515
>pdb|3TTZ|A Chain A, Crystal Structure Of A Topoisomerase Atpase Inhibitor
pdb|3TTZ|B Chain B, Crystal Structure Of A Topoisomerase Atpase Inhibitor
pdb|3U2D|A Chain A, S. Aureus Gyrb Atpase Domain In Complex With Small
Molecule Inhibitor
pdb|3U2D|B Chain B, S. Aureus Gyrb Atpase Domain In Complex With Small
Molecule Inhibitor
pdb|3U2K|A Chain A, S. Aureus Gyrb Atpase Domain In Complex With A Small
Molecule Inhibitor
pdb|3U2K|B Chain B, S. Aureus Gyrb Atpase Domain In Complex With A Small
Molecule Inhibitor
Length = 198
Score = 30.8 bits (68), Expect = 3.4, Method: Composition-based stats.
Identities = 19/47 (40%), Positives = 29/47 (61%), Gaps = 6/47 (12%)
Query: 30 KDLSSAVKELVENSLD---AG-ATSIEIALKEYGEEWFQVVDNGCGI 72
+ L V E+V+NS+D AG A IE+ +++ + W +V DNG GI
Sbjct: 30 RGLHHLVWEIVDNSIDEALAGYANQIEVVIEK--DNWIKVTDNGRGI 74
>pdb|3G75|A Chain A, Crystal Structure Of Staphylococcus Aureus Gyrase B Co-
Complexed With Inhibitor
pdb|3G75|B Chain B, Crystal Structure Of Staphylococcus Aureus Gyrase B Co-
Complexed With Inhibitor
pdb|3G7B|A Chain A, Staphylococcus Aureus Gyrase B Co-Complex With Inhibitor
pdb|3G7B|B Chain B, Staphylococcus Aureus Gyrase B Co-Complex With Inhibitor
Length = 184
Score = 30.4 bits (67), Expect = 4.3, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 6/47 (12%)
Query: 30 KDLSSAVKELVENSLDAG----ATSIEIALKEYGEEWFQVVDNGCGI 72
+ L V E+V+NS+D A IE+ +++ + W +V DNG GI
Sbjct: 19 RGLHHLVWEIVDNSIDEALAGYANQIEVVIEK--DNWIKVTDNGRGI 63
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
0.316 0.132 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,113,846
Number of Sequences: 62578
Number of extensions: 958591
Number of successful extensions: 2308
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 2268
Number of HSP's gapped (non-prelim): 35
length of query: 824
length of database: 14,973,337
effective HSP length: 107
effective length of query: 717
effective length of database: 8,277,491
effective search space: 5934961047
effective search space used: 5934961047
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 56 (26.2 bits)