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= 022155
(302 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DFL|A Chain A, Crystal Structure Of Left-Handed Rada Filament
pdb|2Z43|A Chain A, Structure Of A Twinned Crystal Of Rada
pdb|2Z43|B Chain B, Structure Of A Twinned Crystal Of Rada
pdb|2Z43|C Chain C, Structure Of A Twinned Crystal Of Rada
pdb|2ZUB|A Chain A, Left Handed Rada
pdb|2ZUB|B Chain B, Left Handed Rada
pdb|2ZUC|A Chain A, Crystal Structure Of Left-Handed Rada Filament
pdb|2ZUC|B Chain B, Crystal Structure Of Left-Handed Rada Filament
pdb|2ZUD|A Chain A, Crystal Structure Of Left-Handed Rada Filament
pdb|2ZUD|B Chain B, Crystal Structure Of Left-Handed Rada Filament
Length = 324
Score = 97.8 bits (242), Expect = 7e-21, Method: Compositional matrix adjust.
Identities = 74/287 (25%), Positives = 126/287 (43%), Gaps = 47/287 (16%)
Query: 15 LTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSAS 74
+ +K + G +D L GGI ++TE E GSGKTQ C QL+++ QLP GGLS
Sbjct: 84 MNVKKISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGK 143
Query: 75 SLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSS 134
++Y+ TE F R+ ++ D+ + +++++++ D + I+ ++ +
Sbjct: 144 AVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRAINT-DHQIAIVDDLQELVSKDP 202
Query: 135 NSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV 194
+ I+LIV+DS+ + FR+++ ++L R K L +A + +AV++TNQV
Sbjct: 203 S----IKLIVVDSVTSHFRAEYPGR-ENLAVRQQKLNKHLHQLTRLAEVYDIAVIITNQV 257
Query: 195 VDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMV 254
+ P+ Y G P G + R+ L +
Sbjct: 258 --MARPD------------MFY--GDPTVAVGGHTLYHVPGIRIQLKK------------ 289
Query: 255 NGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
R RR VV APHL + F +T EG+ E
Sbjct: 290 -------------SRGNRRIARVVDAPHLPEGEVVFALTEEGIRDAE 323
>pdb|1PZN|A Chain A, Rad51 (Rada)
pdb|1PZN|B Chain B, Rad51 (Rada)
pdb|1PZN|C Chain C, Rad51 (Rada)
pdb|1PZN|D Chain D, Rad51 (Rada)
pdb|1PZN|E Chain E, Rad51 (Rada)
pdb|1PZN|F Chain F, Rad51 (Rada)
pdb|1PZN|G Chain G, Rad51 (Rada)
Length = 349
Score = 96.7 bits (239), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 78/297 (26%), Positives = 128/297 (43%), Gaps = 43/297 (14%)
Query: 1 MGAPMTPQNLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTL 60
+G L T + + G +D+ LGGGI +ITE+ E GSGKTQ L +
Sbjct: 94 LGTFXRADEYLKKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAV 153
Query: 61 SAQLPSSHGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLL 120
QLP GGL+ S +++ TE F R+ +++ R + +I+V + +
Sbjct: 154 XVQLPPEEGGLNGSVIWIDTENTFRPERIREIAQN-RGLDPDEVLKHIYVARAFNSNHQX 212
Query: 121 DIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAM 180
++ + E IK N+ P++L+++DS+ + FRS++ L +R K L +
Sbjct: 213 LLVQQAEDKIKELLNTDRPVKLLIVDSLTSHFRSEYIG-RGALAERQQKLAKHLADLHRL 271
Query: 181 AVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFL 240
A + +AV VTNQV P+ + G P P G A+ R++L
Sbjct: 272 ANLYDIAVFVTNQV--QARPD------------AFF--GDPTRPIGGHILAHSATLRVYL 315
Query: 241 SRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
+ G GG +R ++ APHL + F IT +G+
Sbjct: 316 RK--------------GKGG-----------KRIARLIDAPHLPEGEAVFSITEKGI 347
>pdb|2BKE|A Chain A, Conformational Flexibility Revealed By The Crystal
Structure Of A Crenarchaeal Rada
Length = 324
Score = 94.0 bits (232), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 74/284 (26%), Positives = 122/284 (42%), Gaps = 47/284 (16%)
Query: 18 EKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLY 77
+K + G +D L GGI + TE E GSGKTQ C QL+++ QLP GGLS ++Y
Sbjct: 87 KKISTGSQALDGLLAGGIETRTXTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGLSGKAVY 146
Query: 78 LHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSR 137
+ TE F R+ + D+ + +++++++ D + I+ ++ + +
Sbjct: 147 IDTEGTFRWERIENXAKALGLDIDNVXNNIYYIRAINT-DHQIAIVDDLQELVSKDPS-- 203
Query: 138 LPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDL 197
I+LIV+DS+ + FR+++ ++L R K L +A + +AV++TNQV
Sbjct: 204 --IKLIVVDSVTSHFRAEYPG-RENLAVRQQKLNKHLHQLTRLAEVYDIAVIITNQVX-- 258
Query: 198 MEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRENQMVNGG 257
P+ Y G P G + R+ L +
Sbjct: 259 ARPD------------XFY--GDPTVAVGGHTLYHVPGIRIQLKK--------------- 289
Query: 258 VGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGVFGVE 301
R RR VV APHL + F +T EG+ E
Sbjct: 290 ----------SRGNRRIARVVDAPHLPEGEVVFALTEEGIRDAE 323
>pdb|4B2I|A Chain A, Humanised Monomeric Rada In Complex With Indazole
pdb|4B2L|A Chain A, Humanised Monomeric Rada In Complex With L-methylester
Tryptophan
pdb|4B32|A Chain A, Humanised Monomeric Rada In Complex With Napht-1-ol
pdb|4B33|A Chain A, Humanised Monomeric Rada In Complex With Napht-2-ol
pdb|4B34|A Chain A, Humanised Monomeric Rada In Complex With 2-amino
Benzothiazole
pdb|4B35|A Chain A, Humanised Monomeric Rada In Complex With 4-methylester
Indole
pdb|4B3C|A Chain A, Humanised Monomeric Rada In Complex With 5-hydroxy Indole
pdb|4B3D|A Chain A, Humanised Monomeric Rada In Complex With 5-methyl Indole
pdb|4B3D|C Chain C, Humanised Monomeric Rada In Complex With 5-methyl Indole
pdb|4B3B|A Chain A, Humanised Monomeric Rada In Complex With Fhta Tetrapeptide
Length = 231
Score = 93.6 bits (231), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 57/179 (31%), Positives = 94/179 (52%), Gaps = 2/179 (1%)
Query: 16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASS 75
T + + G +D+ LGGGI +ITE+ E GSGKTQ L + QLP GGL+ S
Sbjct: 3 TIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSV 62
Query: 76 LYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSN 135
+++ TE F R+ +++ D + ++ +S Q+L ++ + E IK N
Sbjct: 63 MWIDTENTFRPERIREIAQNRGLDPDEVLKHIAYARAFNSNHQML-LVQQAEDMIKELLN 121
Query: 136 SRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV 194
+ P++L+++DS+ + FRS++ L +R K L +A + +AV VTNQV
Sbjct: 122 TDRPVKLLIVDSLTSHFRSEYIGR-GALAERQQKLAKHLADLHRLANLYDIAVFVTNQV 179
>pdb|4A6P|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
pdb|4A6X|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
Bound To Atp
pdb|4A6X|B Chain B, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
Bound To Atp
pdb|4A74|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
Bound To Amppnp
pdb|4A74|B Chain B, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
Bound To Amppnp
pdb|4A7O|A Chain A, Rada C-Terminal Atpase Domain From Pyrococcus Furiosus
Bound To Adp
Length = 231
Score = 93.2 bits (230), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 56/179 (31%), Positives = 94/179 (52%), Gaps = 2/179 (1%)
Query: 16 TTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASS 75
T + + G +D+ LGGGI +ITE+ E GSGKTQ L + QLP GGL+ S
Sbjct: 3 TIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSV 62
Query: 76 LYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSN 135
+++ TE F R+ +++ R + +I+V + + + ++ + E IK N
Sbjct: 63 IWIDTENTFRPERIREIAQN-RGLDPDEVLKHIYVARAFNSNHQMLLVQQAEDKIKELLN 121
Query: 136 SRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQV 194
+ P++L+++DS+ + FRS++ L +R K L +A + +AV VTNQV
Sbjct: 122 TDRPVKLLIVDSLTSHFRSEYIGR-GALAERQQKLAKHLADLHRLANLYDIAVFVTNQV 179
>pdb|1N0W|A Chain A, Crystal Structure Of A Rad51-Brca2 Brc Repeat Complex
Length = 243
Score = 76.3 bits (186), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 61/224 (27%), Positives = 99/224 (44%), Gaps = 20/224 (8%)
Query: 19 KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYL 78
+ T G +D+ L GGI SITE E +GKTQ C L ++ QLP GG + Y+
Sbjct: 5 QITTGSKELDKLLQGGIETGSITEXFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAXYI 64
Query: 79 HTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
TE F RL ++ + S + D + + D ++ + + S +
Sbjct: 65 DTEGTFRPERLLAVAERYGLSGS-DVLDNVAYARAFNTDHQTQLLYQASAXXVESRYA-- 121
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLM 198
L+++DS AL+R+D+ +L R + L +A FG+AV++TNQVV +
Sbjct: 122 ---LLIVDSATALYRTDYSG-RGELSARQXHLARFLRXLLRLADEFGVAVVITNQVVAQV 177
Query: 199 EPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRLFLSR 242
+ G + P P G A+ +RL+L +
Sbjct: 178 D-------------GAAXFAADPKKPIGGNIIAHASTTRLYLRK 208
>pdb|1V5W|A Chain A, Crystal Structure Of The Human Dmc1 Protein
pdb|1V5W|B Chain B, Crystal Structure Of The Human Dmc1 Protein
Length = 343
Score = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 51/177 (28%), Positives = 88/177 (49%), Gaps = 7/177 (3%)
Query: 20 CTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH 79
T G D+ LGGGI +ITE E +GKTQ L ++AQLP + G +++
Sbjct: 104 ITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFID 163
Query: 80 TEFPFPMRRLHQLSHTFRPSNDHNPC-DYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
TE F RL ++ F + DH+ D + ++ + ++++ + + +
Sbjct: 164 TENTFRPDRLRDIADRF--NVDHDAVLDNVLYARAYTSEHQMELLDYVAAKFHEEAG--- 218
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV 195
+L++IDSI ALFR DF +L +R ++ L+ ++ + +AV VTNQ+
Sbjct: 219 IFKLLIIDSIMALFRVDFSGR-GELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMT 274
>pdb|3LDA|A Chain A, Yeast Rad51 H352y Filament Interface Mutant
Length = 400
Score = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 56/167 (33%), Positives = 79/167 (47%), Gaps = 11/167 (6%)
Query: 21 TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
T G +D LGGG+ SITEL E +GK+Q C L ++ Q+P GG LY+ T
Sbjct: 161 TTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDT 220
Query: 81 EFPFPMRRLHQLSHTF--RPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
E F RL ++ F P + N Y + +LLD ++ S SR
Sbjct: 221 EGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLDAAAQM------MSESRF 274
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFG 185
LIV+DS+ AL+R+DF + +L R K L+ +A FG
Sbjct: 275 S--LIVVDSVMALYRTDF-SGRGELSARQMHLAKFMRALQRLADQFG 318
>pdb|2ZJB|A Chain A, Crystal Structure Of The Human Dmc1-M200v Polymorphic
Variant
pdb|2ZJB|B Chain B, Crystal Structure Of The Human Dmc1-M200v Polymorphic
Variant
Length = 343
Score = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 51/177 (28%), Positives = 88/177 (49%), Gaps = 7/177 (3%)
Query: 20 CTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLH 79
T G D+ LGGGI +ITE E +GKTQ L ++AQLP + G +++
Sbjct: 104 ITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFID 163
Query: 80 TEFPFPMRRLHQLSHTFRPSNDHNPC-DYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
TE F RL ++ F + DH+ D + ++ + ++++ + + +
Sbjct: 164 TENTFRPDRLRDIADRF--NVDHDAVLDNVLYARAYTSEHQVELLDYVAAKFHEEAG--- 218
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFGLAVLVTNQVV 195
+L++IDSI ALFR DF +L +R ++ L+ ++ + +AV VTNQ+
Sbjct: 219 IFKLLIIDSIMALFRVDFSGR-GELAERQQKLAQMLSRLQKISEEYNVAVFVTNQMT 274
>pdb|1SZP|A Chain A, A Crystal Structure Of The Rad51 Filament
pdb|1SZP|B Chain B, A Crystal Structure Of The Rad51 Filament
pdb|1SZP|C Chain C, A Crystal Structure Of The Rad51 Filament
pdb|1SZP|D Chain D, A Crystal Structure Of The Rad51 Filament
pdb|1SZP|E Chain E, A Crystal Structure Of The Rad51 Filament
pdb|1SZP|F Chain F, A Crystal Structure Of The Rad51 Filament
Length = 321
Score = 75.1 bits (183), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 56/167 (33%), Positives = 78/167 (46%), Gaps = 11/167 (6%)
Query: 21 TVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHT 80
T G +D LGGG+ SITEL E +GK+Q C L ++ Q+P GG LY+ T
Sbjct: 82 TTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDT 141
Query: 81 EFPFPMRRLHQLSHTF--RPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
E F RL ++ F P + N Y + +LLD ++ S SR
Sbjct: 142 EGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLDAAAQM------MSESRF 195
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAMAVGFG 185
LIV+DS+ AL+R+DF +L R K L+ +A FG
Sbjct: 196 S--LIVVDSVMALYRTDFSGR-GELSARQMHLAKFMRALQRLADQFG 239
>pdb|1T4G|A Chain A, Atpase In Complex With Amp-pnp
pdb|1XU4|A Chain A, Atpase In Complex With Amp-Pnp, Magnesium And Potassium
Co-F
pdb|2FPK|A Chain A, Rada Recombinase In Complex With Adp
pdb|2FPL|A Chain A, Rada Recombinase In Complex With Amp-Pnp And Low
Concentration Of K+
pdb|2FPM|A Chain A, Rada Recombinase In Complex With Amp-Pnp And High
Concentration Of K+
pdb|2B21|A Chain A, Rada Recombinase In Complex With Amppnp At Ph 6.0
pdb|2I1Q|A Chain A, Rada Recombinase In Complex With Calcium
pdb|3FYH|A Chain A, Recombinase In Complex With Adp And Metatungstate
Length = 322
Score = 70.9 bits (172), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 58/196 (29%), Positives = 89/196 (45%), Gaps = 16/196 (8%)
Query: 9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS-- 66
+LL T K + +D LGGG+ S+TE GSGKTQ Q ++ Q P
Sbjct: 69 DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL 128
Query: 67 -------SHGGLSA-SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
S G ++ ++Y+ TE F R+ Q++ + D FV ++ D
Sbjct: 129 FYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAE-HAGIDGQTVLDNTFVARAYNSDM 187
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
+ KIE I+ +N I+L+VIDS+ + FR+++ L +R + L
Sbjct: 188 QMLFAEKIEDLIQEGNN----IKLVVIDSLTSTFRNEY-TGRGKLAERQQKLGRHMATLN 242
Query: 179 AMAVGFGLAVLVTNQV 194
+A F VLVTNQV
Sbjct: 243 KLADLFNCVVLVTNQV 258
>pdb|3NTU|A Chain A, Rada Recombinase D302k Mutant In Complex With Amp-Pnp
Length = 319
Score = 70.9 bits (172), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 58/196 (29%), Positives = 89/196 (45%), Gaps = 16/196 (8%)
Query: 9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS-- 66
+LL T K + +D LGGG+ S+TE GSGKTQ Q ++ Q P
Sbjct: 66 DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL 125
Query: 67 -------SHGGLSA-SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
S G ++ ++Y+ TE F R+ Q++ + D FV ++ D
Sbjct: 126 FYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAE-HAGIDGQTVLDNTFVARAYNSDM 184
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
+ KIE I+ +N I+L+VIDS+ + FR+++ L +R + L
Sbjct: 185 QMLFAEKIEDLIQEGNN----IKLVVIDSLTSTFRNEYTGR-GKLAERQQKLGRHMATLN 239
Query: 179 AMAVGFGLAVLVTNQV 194
+A F VLVTNQV
Sbjct: 240 KLADLFNCVVLVTNQV 255
>pdb|2GDJ|A Chain A, Delta-62 Rada Recombinase In Complex With Amp-Pnp And
Magnesium
Length = 264
Score = 70.9 bits (172), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 58/196 (29%), Positives = 89/196 (45%), Gaps = 16/196 (8%)
Query: 9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS-- 66
+LL T K + +D LGGG+ S+TE GSGKTQ Q ++ Q P
Sbjct: 11 DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL 70
Query: 67 -------SHGGLSA-SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
S G ++ ++Y+ TE F R+ Q++ + D FV ++ D
Sbjct: 71 FYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAE-HAGIDGQTVLDNTFVARAYNSDM 129
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
+ KIE I+ +N I+L+VIDS+ + FR+++ L +R + L
Sbjct: 130 QMLFAEKIEDLIQEGNN----IKLVVIDSLTSTFRNEYTGR-GKLAERQQKLGRHMATLN 184
Query: 179 AMAVGFGLAVLVTNQV 194
+A F VLVTNQV
Sbjct: 185 KLADLFNCVVLVTNQV 200
>pdb|4DC9|A Chain A, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|B Chain B, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|C Chain C, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|D Chain D, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|E Chain E, Hexameric Ring Of Methanococcus Voltae Rada
pdb|4DC9|F Chain F, Hexameric Ring Of Methanococcus Voltae Rada
Length = 266
Score = 70.9 bits (172), Expect = 9e-13, Method: Compositional matrix adjust.
Identities = 58/196 (29%), Positives = 89/196 (45%), Gaps = 16/196 (8%)
Query: 9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS-- 66
+LL T K + +D LGGG+ S+TE GSGKTQ Q ++ Q P
Sbjct: 13 DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL 72
Query: 67 -------SHGGLSA-SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
S G ++ ++Y+ TE F R+ Q++ + D FV ++ D
Sbjct: 73 FYDEEAVSKGEVAQPKAVYIDTEGTFRPERIMQMAE-HAGIDGQTVLDNTFVARAYNSDM 131
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
+ KIE I+ +N I+L+VIDS+ + FR+++ L +R + L
Sbjct: 132 QMLFAEKIEDLIQEGNN----IKLVVIDSLTSTFRNEY-TGRGKLAERQQKLGRHMATLN 186
Query: 179 AMAVGFGLAVLVTNQV 194
+A F VLVTNQV
Sbjct: 187 KLADLFNCVVLVTNQV 202
>pdb|2F1H|A Chain A, Recombinase In Complex With Amp-pnp And Potassium
pdb|2F1I|A Chain A, Recombinase In Complex With Amp-pnp
pdb|2F1J|A Chain A, Recombinase In Complex With Adp
Length = 322
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 57/196 (29%), Positives = 89/196 (45%), Gaps = 16/196 (8%)
Query: 9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPS-- 66
+LL T K + +D LGGG+ S+TE GSGKTQ Q ++ Q P
Sbjct: 69 DLLKQRSTVWKLSTSSSELDSVLGGGLESQSVTEFAGVFGSGKTQIMHQSCVNLQNPEFL 128
Query: 67 -------SHGGLSA-SSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
S G ++ ++Y+ T+ F R+ Q++ + D FV ++ D
Sbjct: 129 FYDEEAVSKGEVAQPKAVYIDTDGTFRPERIMQMAE-HAGIDGQTVLDNTFVARAYNSDM 187
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
+ KIE I+ +N I+L+VIDS+ + FR+++ L +R + L
Sbjct: 188 QMLFAEKIEDLIQEGNN----IKLVVIDSLTSTFRNEY-TGRGKLAERQQKLGRHMATLN 242
Query: 179 AMAVGFGLAVLVTNQV 194
+A F VLVTNQV
Sbjct: 243 KLADLFNCVVLVTNQV 258
>pdb|3ETL|A Chain A, Rada Recombinase From Methanococcus Maripaludis In Complex
With Amppnp
pdb|3EW9|A Chain A, Rada Recombinase From Methanococcus Maripaludis In Complex
With Amppnp And Potassium Ions
pdb|3EWA|A Chain A, Rada Recombinase From Methanococcus Maripaludis In Complex
With Amppnp And Ammonium Ions
Length = 322
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 70/299 (23%), Positives = 113/299 (37%), Gaps = 57/299 (19%)
Query: 9 NLLDNPLTTEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSS- 67
LL + + + G +D L GGI S+TE GSGKTQ Q ++ Q+
Sbjct: 69 ELLKQRQSVWRLSTGSTELDTVLAGGIESQSVTEFAGMFGSGKTQIMHQTCVNLQMREKI 128
Query: 68 ---------HGGLSASSLYLHTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQ 118
+ ++Y+ TE F R+ Q++ + D FV ++ D
Sbjct: 129 FADLEGVVEEELEAPKAVYIDTEGTFRPERVVQMAEG-AGIDGQTVLDNTFVARAYNSDM 187
Query: 119 LLDIMPKIESFIKNSSNSRLPIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLK 178
+ KIE IK +N I+L++IDS+ + FR++F L +R + L
Sbjct: 188 QMLFAEKIEDLIKGGNN----IKLVIIDSLTSTFRNEFTGR-GKLAERQQKLGRHMATLN 242
Query: 179 AMAVGFGLAVLVTNQVVDLMEPNEGVNGLRVGNLGCLYSSGRPICPALGIAWANCVNSRL 238
+A + VLVTNQV + GV +G G + R
Sbjct: 243 KLADLYNCIVLVTNQVAAKPDAYFGVAEQAIG----------------GHVVGHAATFRF 286
Query: 239 FLSRNEDFVVRENQMVNGGVGGSGSEDFVCRRTRRSLHVVFAPHLADTSCEFEITREGV 297
FL ++ + +R + +PHL D+ F IT +G+
Sbjct: 287 FLRKS-------------------------KGDKRVAKLYDSPHLPDSEAVFRITEKGI 320
>pdb|2CVF|A Chain A, Crystal Structure Of The Radb Recombinase
pdb|2CVF|B Chain B, Crystal Structure Of The Radb Recombinase
pdb|2CVH|A Chain A, Crystal Structure Of The Radb Recombinase
pdb|2CVH|B Chain B, Crystal Structure Of The Radb Recombinase
Length = 220
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 46/179 (25%), Positives = 76/179 (42%), Gaps = 29/179 (16%)
Query: 20 CTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSL-YL 78
+ G +D LGGG +T++ SGKT LQ L LS + Y+
Sbjct: 2 LSTGTKSLDSLLGGGFAPGVLTQVYGPYASGKTTLALQTGL----------LSGKKVAYV 51
Query: 79 HTEFPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRL 138
TE F RL Q++ T + + +I +Q ++ +K + +S
Sbjct: 52 DTEGGFSPERLVQMAETRGLNPEEALSRFILFTPSDFKEQ-----RRVIGSLKKTVDSNF 106
Query: 139 PIRLIVIDSIAALFRSDFDNTMDDLKKRSFLFFKISGMLKAM---AVGFGLAVLVTNQV 194
L+V+DSI A +R++ + RS L ++S L+ + A + V+V NQV
Sbjct: 107 A--LVVVDSITAHYRAE--------ENRSGLIAELSRQLQVLLWIARKHNIPVIVINQV 155
>pdb|3HR8|A Chain A, Crystal Structure Of Thermotoga Maritima Reca
Length = 356
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 55/187 (29%), Positives = 77/187 (41%), Gaps = 39/187 (20%)
Query: 18 EKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSL 76
E G ID G GG P I E+ + SGKT L AQ GG++A
Sbjct: 40 EVIPTGSLAIDIATGVGGYPRGRIVEIFGQESSGKTTLALHAIAEAQ---KMGGVAAFID 96
Query: 77 YLHTEFPFPMRRLH-QLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSN 135
H P + L L DH Q++ VD+L + S +
Sbjct: 97 AEHALDPVYAKNLGVDLKSLLISQPDHGE------QALEIVDEL------VRSGV----- 139
Query: 136 SRLPIRLIVIDSIAALF-RSDFDNTMDD----LKKR--SFLFFKISGML-KAMAVGFGLA 187
+ LIV+DS+AAL R++ + M D L+ R S KI+G + K+ AV
Sbjct: 140 ----VDLIVVDSVAALVPRAEIEGAMGDMQVGLQARLMSQALRKIAGSVNKSKAV----- 190
Query: 188 VLVTNQV 194
V+ TNQ+
Sbjct: 191 VIFTNQI 197
>pdb|1G18|A Chain A, Reca-Adp-Alf4 Complex
pdb|1G19|A Chain A, Structure Of Reca Protein
pdb|1MO3|A Chain A, Reca-Adp Complex
pdb|1MO4|A Chain A, Reca-Atp-Gamma-S Complex
pdb|1MO5|A Chain A, Reca-Atp-Gamma-S-Mg Complex
pdb|1MO6|A Chain A, Reca-datp-mg Complex
Length = 350
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 37/142 (26%), Positives = 62/142 (43%), Gaps = 25/142 (17%)
Query: 23 GCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE 81
G +D LG GG+P + E+ SGKT L +AQ + GG++A H
Sbjct: 44 GSIALDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ---AAGGVAAFIDAEHAL 100
Query: 82 FPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIR 141
P ++L D + V + +Q L+I + I++ + +
Sbjct: 101 DPDYAKKLGV------------DTDSLLVSQPDTGEQALEIA---DMLIRSGA-----LD 140
Query: 142 LIVIDSIAALF-RSDFDNTMDD 162
++VIDS+AAL R++ + M D
Sbjct: 141 IVVIDSVAALVPRAELEGEMGD 162
>pdb|2ZRC|A Chain A, Msreca Q196n Form Iv
pdb|2ZRD|A Chain A, Msreca Q196n Adp Form Iv
pdb|2ZRE|A Chain A, Msreca Q196n Atpgs Form Iv
pdb|2ZRF|A Chain A, Msreca Q196n Datp Form Iv
pdb|2ZRG|A Chain A, Msreca Q196n Datp Form Ii'
Length = 349
Score = 35.8 bits (81), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 37/142 (26%), Positives = 62/142 (43%), Gaps = 25/142 (17%)
Query: 23 GCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE 81
G +D LG GG+P + E+ SGKT L +AQ + GG++A H
Sbjct: 45 GSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ---AAGGIAAFIDAEHAL 101
Query: 82 FPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIR 141
P ++L D + V + +Q L+I + +++ + +
Sbjct: 102 DPEYAKKLGV------------DTDSLLVSQPDTGEQALEIA---DMLVRSGA-----LD 141
Query: 142 LIVIDSIAALF-RSDFDNTMDD 162
+IVIDS+AAL R++ + M D
Sbjct: 142 IIVIDSVAALVPRAEIEGEMGD 163
>pdb|2ZRH|A Chain A, Msreca Q196a Form Iv
pdb|2ZRI|A Chain A, Msreca Q196a Adp Form Iv
pdb|2ZRJ|A Chain A, Msreca Q196a Atpgs Form Iv
pdb|2ZRK|A Chain A, Msreca Q196a Datp Form Iv
pdb|2ZRL|A Chain A, Msreca Q196a Datp Form Ii'
Length = 349
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 37/142 (26%), Positives = 62/142 (43%), Gaps = 25/142 (17%)
Query: 23 GCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE 81
G +D LG GG+P + E+ SGKT L +AQ + GG++A H
Sbjct: 45 GSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ---AAGGIAAFIDAEHAL 101
Query: 82 FPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIR 141
P ++L D + V + +Q L+I + +++ + +
Sbjct: 102 DPEYAKKLGV------------DTDSLLVSQPDTGEQALEIA---DMLVRSGA-----LD 141
Query: 142 LIVIDSIAALF-RSDFDNTMDD 162
+IVIDS+AAL R++ + M D
Sbjct: 142 IIVIDSVAALVPRAEIEGEMGD 163
>pdb|2ZR0|A Chain A, Msreca-Q196e Mutant
pdb|2ZR9|A Chain A, Msreca Q196e Datp Form Iv
pdb|2ZRA|A Chain A, Msreca Q196e Atpgs
pdb|2ZRB|A Chain A, Msreca Q196e Form Ii'
Length = 349
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 37/142 (26%), Positives = 62/142 (43%), Gaps = 25/142 (17%)
Query: 23 GCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE 81
G +D LG GG+P + E+ SGKT L +AQ + GG++A H
Sbjct: 45 GSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ---AAGGIAAFIDAEHAL 101
Query: 82 FPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIR 141
P ++L D + V + +Q L+I + +++ + +
Sbjct: 102 DPEYAKKLGV------------DTDSLLVSQPDTGEQALEIA---DMLVRSGA-----LD 141
Query: 142 LIVIDSIAALF-RSDFDNTMDD 162
+IVIDS+AAL R++ + M D
Sbjct: 142 IIVIDSVAALVPRAEIEGEMGD 163
>pdb|1UBC|A Chain A, Structure Of Reca Protein
pdb|1UBE|A Chain A, Msreca-Adp Complex
pdb|1UBF|A Chain A, Msreca-Atpgs Complex
pdb|1UBG|A Chain A, Msreca-Datp Complex
pdb|2G88|A Chain A, Msreca-datp Complex
pdb|2ODN|A Chain A, Msreca-Datp Complex
pdb|2ODW|A Chain A, Msreca-Atp-Gama-S Complex
pdb|2OE2|A Chain A, Msreca-Native-Low Humidity 95%
pdb|2OEP|A Chain A, Msreca-adp-complex
pdb|2OES|A Chain A, Msreca-Native-Ssb
pdb|2OFO|A Chain A, Msreca-native
pdb|2ZR7|A Chain A, Msreca Native Form Ii'
pdb|2ZRM|A Chain A, Msreca Datp Form Iv
pdb|2ZRN|A Chain A, Msreca Form Iv
pdb|2ZRO|A Chain A, Msreca Adp Form Iv
pdb|2ZRP|A Chain A, Msreca Datp Form Ii'
Length = 349
Score = 35.8 bits (81), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 37/142 (26%), Positives = 62/142 (43%), Gaps = 25/142 (17%)
Query: 23 GCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQLPSSHGGLSASSLYLHTE 81
G +D LG GG+P + E+ SGKT L +AQ + GG++A H
Sbjct: 45 GSISLDVALGIGGLPRGRVIEIYGPESSGKTTVALHAVANAQ---AAGGIAAFIDAEHAL 101
Query: 82 FPFPMRRLHQLSHTFRPSNDHNPCDYIFVQSVHSVDQLLDIMPKIESFIKNSSNSRLPIR 141
P ++L D + V + +Q L+I + +++ + +
Sbjct: 102 DPEYAKKLGV------------DTDSLLVSQPDTGEQALEIA---DMLVRSGA-----LD 141
Query: 142 LIVIDSIAALF-RSDFDNTMDD 162
+IVIDS+AAL R++ + M D
Sbjct: 142 IIVIDSVAALVPRAEIEGEMGD 163
>pdb|1U94|A Chain A, Crystal Structure Of E. Coli Reca In A Compressed
Helical Filament Form 2
pdb|1U98|A Chain A, "crystal Structure Of E. Coli Reca In A Compressed
Helical Filament Form3"
pdb|1U99|A Chain A, "crystal Structures Of E. Coli Reca In A Compressed
Helical Filament Form 4"
pdb|1XMS|A Chain A, "e. Coli Reca In Complex With Mnamp-Pnp"
pdb|1XMV|A Chain A, "e. Coli Reca In Complex With Mgadp"
Length = 356
Score = 35.4 bits (80), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 36 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 88
>pdb|2REC|A Chain A, Reca Hexamer Model, Electron Microscopy
pdb|2REC|B Chain B, Reca Hexamer Model, Electron Microscopy
pdb|2REC|C Chain C, Reca Hexamer Model, Electron Microscopy
pdb|2REC|D Chain D, Reca Hexamer Model, Electron Microscopy
pdb|2REC|E Chain E, Reca Hexamer Model, Electron Microscopy
pdb|2REC|F Chain F, Reca Hexamer Model, Electron Microscopy
Length = 353
Score = 35.4 bits (80), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 33 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 85
>pdb|1N03|A Chain A, Model For Active Reca Filament
pdb|1N03|B Chain B, Model For Active Reca Filament
pdb|1N03|C Chain C, Model For Active Reca Filament
pdb|1N03|D Chain D, Model For Active Reca Filament
pdb|1N03|E Chain E, Model For Active Reca Filament
pdb|1N03|F Chain F, Model For Active Reca Filament
pdb|1N03|G Chain G, Model For Active Reca Filament
pdb|1REA|A Chain A, Structure Of The Reca Protein-Adp Complex
pdb|2REB|A Chain A, The Structure Of The E. Coli Reca Protein Monomer And
Polymer
Length = 352
Score = 35.0 bits (79), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 32 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 84
>pdb|3CMV|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|B Chain B, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|C Chain C, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|D Chain D, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|E Chain E, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|F Chain F, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|G Chain G, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMV|H Chain H, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
Length = 1357
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 7 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 59
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 356 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 408
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 705 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 757
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 1055 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 1107
>pdb|3CMU|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
Length = 2050
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 7 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 59
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 356 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 408
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 705 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 757
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 1054 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 1106
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 1400 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 1452
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 1748 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 1800
>pdb|3CMT|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMT|D Chain D, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMW|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMW|C Chain C, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMX|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
pdb|3CMX|D Chain D, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
Length = 1706
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 7 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 59
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 356 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 408
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 705 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 757
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 1055 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 1107
Score = 35.0 bits (79), Expect = 0.055, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
D + E + G +D LG GG+P I E+ SGKT LQ+ +AQ
Sbjct: 1404 DRSMDVETISTGSLSLDIALGAGGLPMGRIVEIYGPESSGKTTLTLQVIAAAQ 1456
>pdb|2DR3|A Chain A, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
pdb|2DR3|B Chain B, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
pdb|2DR3|C Chain C, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
pdb|2DR3|D Chain D, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
pdb|2DR3|E Chain E, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
pdb|2DR3|F Chain F, Crystal Structure Of Reca Superfamily Atpase Ph0284 From
Pyrococcus Horikoshii Ot3
Length = 247
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%)
Query: 17 TEKCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQL 58
T + G P +D L GGIP ++ L G+GKT F Q
Sbjct: 2 TRRVKTGIPGVDEILHGGIPERNVVLLSGGPGTGKTIFSQQF 43
>pdb|1XP8|A Chain A, "deinococcus Radiodurans Reca In Complex With
Atp-Gamma-S"
Length = 366
Score = 32.0 bits (71), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 12 DNPLTTEKCTVGCPIIDRCLG-GGIPCNSITELVAESGSGKTQFCLQLTLSAQ 63
++ L + + G +D LG GGIP ITE+ GKT L + AQ
Sbjct: 47 ESKLDVQVVSTGSLSLDLALGVGGIPRGRITEIYGPESGGKTTLALAIVAQAQ 99
>pdb|2W0M|A Chain A, Crystal Structure Of Sso2452 From Sulfolobus
Solfataricus P2
Length = 235
Score = 30.8 bits (68), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 19 KCTVGCPIIDRCLGGGIPCNSITELVAESGSGKTQFCLQL 58
+ + G D+ + GGIP L E G+GKT F L
Sbjct: 4 RLSTGILDFDKLIQGGIPQGFFIALTGEPGTGKTIFSLHF 43
>pdb|2HTV|A Chain A, N4 Neuraminidase
pdb|2HTV|B Chain B, N4 Neuraminidase
pdb|2HTW|A Chain A, N4 Neuraminidase In Complex With Dana
Length = 390
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 20/35 (57%)
Query: 216 YSSGRPICPALGIAWANCVNSRLFLSRNEDFVVRE 250
YSSG+ +CP G A + N SR E FV+RE
Sbjct: 4 YSSGKDLCPVKGWAPLSKDNGIRIGSRGEVFVIRE 38
>pdb|1PYS|B Chain B, Phenylalanyl-Trna Synthetase From Thermus Thermophilus
pdb|1B7Y|B Chain B, Phenylalanyl Trna Synthetase Complexed With
Phenylalaninyl-Adenylate
pdb|1EIY|B Chain B, The Crystal Structure Of Phenylalanyl-Trna Synthetase From
Thermus Thermophilus Complexed With Cognate Trnaphe
pdb|1B70|B Chain B, Phenylalanyl Trna Synthetase Complexed With Phenylalanine
pdb|1JJC|B Chain B, Crystal Structure At 2.6a Resolution Of Phenylalanyl-trna
Synthetase Complexed With Phenylalanyl-adenylate In The
Presence Of Manganese
pdb|2AKW|B Chain B, Crystal Structure Of T.thermophilus Phenylalanyl-trna
Synthetase Complexed With P-cl-phenylalanine
pdb|2ALY|B Chain B, Crystal Structure Of T.Thermophilus Phenylalanyl-Trna
Synthetase Complexed With
5'-O-[n-(L-Tyrosyl)sulphamoyl]adenosine
pdb|2AMC|B Chain B, Crystal Structure Of Phenylalanyl-Trna Synthetase
Complexed With L- Tyrosine
pdb|3HFZ|B Chain B, Crystal Structure Of Thermus Thermophilus
Phenylalanyl-Trna Synthetase Comlexed With M-Tyrosine
pdb|3TEH|B Chain B, Crystal Structure Of Thermus Thermophilus
Phenylalanyl-Trna Synthetase Comlexed With L-Dopa
Length = 785
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 26/59 (44%), Gaps = 4/59 (6%)
Query: 164 KKRSFLFFKISGMLKAMAVGFGLAVLVTNQVVDLMEPNEG----VNGLRVGNLGCLYSS 218
K+R +F + G L+A+ GLA V Q + P V G VG LG L+
Sbjct: 600 KERLSGYFLLKGYLEALFARLGLAFRVEAQAFPFLHPGVSGRVLVEGEEVGFLGALHPE 658
>pdb|2GU2|A Chain A, Crystal Structure Of An Aspartoacylase From Rattus
Norvegicus
pdb|2GU2|B Chain B, Crystal Structure Of An Aspartoacylase From Rattus
Norvegicus
pdb|2Q4Z|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of An
Aspartoacylase From Rattus Norvegicus
pdb|2Q4Z|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of An
Aspartoacylase From Rattus Norvegicus
Length = 312
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 9/29 (31%), Positives = 17/29 (58%)
Query: 81 EFPFPMRRLHQLSHTFRPSNDHNPCDYIF 109
+ P+ +RR +++H F P N + D +F
Sbjct: 84 DLPYEVRRAQEINHLFGPKNSDDAYDVVF 112
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
0.323 0.139 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,637,835
Number of Sequences: 62578
Number of extensions: 346324
Number of successful extensions: 820
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 755
Number of HSP's gapped (non-prelim): 52
length of query: 302
length of database: 14,973,337
effective HSP length: 98
effective length of query: 204
effective length of database: 8,840,693
effective search space: 1803501372
effective search space used: 1803501372
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)