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= 026304
(240 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ORV|A Chain A, Human Thymidine Kinase 1 In Complex With Tp4a
pdb|2ORV|B Chain B, Human Thymidine Kinase 1 In Complex With Tp4a
Length = 234
Score = 147 bits (370), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 82/185 (44%), Positives = 112/185 (60%), Gaps = 7/185 (3%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDG 83
G P + G+I VI+GPMF+GK+T L+RR+R +IK +KDTRY+ S THD
Sbjct: 12 GSPSKTRGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDR 70
Query: 84 AKLPCWALPELTSFRQKLGDDAYAKLDVIGIDEAQFFEDLYEFCCNAADHDGKTVVVAGL 143
+ ALP + + +A + VIGIDE QFF D+ EFC A + GKTV+VA L
Sbjct: 71 NTM--EALP--ACLLRDVAQEALG-VAVIGIDEGQFFPDIVEFC-EAMANAGKTVIVAAL 124
Query: 144 DGDYLRRSFGSVLDIIPLADTVTKLTARCELCGKRAFFTLRKXXXXXXXIIGGADVYMPV 203
DG + R+ FG++L+++PLA++V KLTA C C + A +T R +IGGAD Y V
Sbjct: 125 DGTFQRKPFGAILNLVPLAESVVKLTAVCMECFREAAYTKRLGTEKEVEVIGGADKYHSV 184
Query: 204 CRQHY 208
CR Y
Sbjct: 185 CRLCY 189
>pdb|1XBT|A Chain A, Crystal Structure Of Human Thymidine Kinase 1
pdb|1XBT|B Chain B, Crystal Structure Of Human Thymidine Kinase 1
pdb|1XBT|C Chain C, Crystal Structure Of Human Thymidine Kinase 1
pdb|1XBT|D Chain D, Crystal Structure Of Human Thymidine Kinase 1
pdb|1XBT|E Chain E, Crystal Structure Of Human Thymidine Kinase 1
pdb|1XBT|F Chain F, Crystal Structure Of Human Thymidine Kinase 1
pdb|1XBT|G Chain G, Crystal Structure Of Human Thymidine Kinase 1
pdb|1XBT|H Chain H, Crystal Structure Of Human Thymidine Kinase 1
Length = 193
Score = 146 bits (369), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 82/185 (44%), Positives = 112/185 (60%), Gaps = 7/185 (3%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDG 83
G P + G+I VI+GPMF+GK+T L+RR+R +IK +KDTRY+ S THD
Sbjct: 12 GSPSKTRGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDR 70
Query: 84 AKLPCWALPELTSFRQKLGDDAYAKLDVIGIDEAQFFEDLYEFCCNAADHDGKTVVVAGL 143
+ ALP + + +A + VIGIDE QFF D+ EFC A + GKTV+VA L
Sbjct: 71 NTM--EALP--ACLLRDVAQEALG-VAVIGIDEGQFFPDIVEFC-EAMANAGKTVIVAAL 124
Query: 144 DGDYLRRSFGSVLDIIPLADTVTKLTARCELCGKRAFFTLRKXXXXXXXIIGGADVYMPV 203
DG + R+ FG++L+++PLA++V KLTA C C + A +T R +IGGAD Y V
Sbjct: 125 DGTFQRKPFGAILNLVPLAESVVKLTAVCMECFREAAYTKRLGTEKEVEVIGGADKYHSV 184
Query: 204 CRQHY 208
CR Y
Sbjct: 185 CRLCY 189
>pdb|2WVJ|A Chain A, Mutation Of Thr163 To Ser In Human Thymidine Kinase Shifts
The Specificity From Thymidine Towards The Nucleoside
Analogue Azidothymidine
pdb|2WVJ|B Chain B, Mutation Of Thr163 To Ser In Human Thymidine Kinase Shifts
The Specificity From Thymidine Towards The Nucleoside
Analogue Azidothymidine
pdb|2WVJ|C Chain C, Mutation Of Thr163 To Ser In Human Thymidine Kinase Shifts
The Specificity From Thymidine Towards The Nucleoside
Analogue Azidothymidine
pdb|2WVJ|D Chain D, Mutation Of Thr163 To Ser In Human Thymidine Kinase Shifts
The Specificity From Thymidine Towards The Nucleoside
Analogue Azidothymidine
pdb|2WVJ|E Chain E, Mutation Of Thr163 To Ser In Human Thymidine Kinase Shifts
The Specificity From Thymidine Towards The Nucleoside
Analogue Azidothymidine
pdb|2WVJ|F Chain F, Mutation Of Thr163 To Ser In Human Thymidine Kinase Shifts
The Specificity From Thymidine Towards The Nucleoside
Analogue Azidothymidine
pdb|2WVJ|G Chain G, Mutation Of Thr163 To Ser In Human Thymidine Kinase Shifts
The Specificity From Thymidine Towards The Nucleoside
Analogue Azidothymidine
pdb|2WVJ|H Chain H, Mutation Of Thr163 To Ser In Human Thymidine Kinase Shifts
The Specificity From Thymidine Towards The Nucleoside
Analogue Azidothymidine
Length = 193
Score = 145 bits (366), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 81/185 (43%), Positives = 112/185 (60%), Gaps = 7/185 (3%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDG 83
G P + G+I VI+GPMF+GK+T L+RR+R +IK +KDTRY+ S THD
Sbjct: 12 GSPSKTRGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDR 70
Query: 84 AKLPCWALPELTSFRQKLGDDAYAKLDVIGIDEAQFFEDLYEFCCNAADHDGKTVVVAGL 143
+ ALP + + +A + VIGIDE QFF D+ EFC A + GKTV+VA L
Sbjct: 71 NTM--EALP--ACLLRDVAQEALG-VAVIGIDEGQFFPDIVEFC-EAMANAGKTVIVAAL 124
Query: 144 DGDYLRRSFGSVLDIIPLADTVTKLTARCELCGKRAFFTLRKXXXXXXXIIGGADVYMPV 203
DG + R+ FG++L+++PLA++V KLTA C C + A ++ R +IGGAD Y V
Sbjct: 125 DGTFQRKPFGAILNLVPLAESVVKLTAVCMECFREAAYSKRLGTEKEVEVIGGADKYHSV 184
Query: 204 CRQHY 208
CR Y
Sbjct: 185 CRLCY 189
>pdb|1W4R|A Chain A, Structure Of A Type Ii Thymidine Kinase With Bound Dttp
pdb|1W4R|B Chain B, Structure Of A Type Ii Thymidine Kinase With Bound Dttp
pdb|1W4R|C Chain C, Structure Of A Type Ii Thymidine Kinase With Bound Dttp
pdb|1W4R|D Chain D, Structure Of A Type Ii Thymidine Kinase With Bound Dttp
pdb|1W4R|E Chain E, Structure Of A Type Ii Thymidine Kinase With Bound Dttp
pdb|1W4R|F Chain F, Structure Of A Type Ii Thymidine Kinase With Bound Dttp
pdb|1W4R|G Chain G, Structure Of A Type Ii Thymidine Kinase With Bound Dttp
pdb|1W4R|H Chain H, Structure Of A Type Ii Thymidine Kinase With Bound Dttp
Length = 195
Score = 142 bits (357), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 80/181 (44%), Positives = 110/181 (60%), Gaps = 7/181 (3%)
Query: 28 RNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDGAKLP 87
+ G+I VI+GPMF+GK+T L+RR+R +IK +KDTRY+ S THD +
Sbjct: 17 KTRGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDRNTME 75
Query: 88 CWALPELTSFRQKLGDDAYAKLDVIGIDEAQFFEDLYEFCCNAADHDGKTVVVAGLDGDY 147
ALP + + +A + VIGIDE QFF D+ EFC A + GKTV+VA LDG +
Sbjct: 76 --ALP--ACLLRDVAQEALG-VAVIGIDEGQFFPDIVEFC-EAMANAGKTVIVAALDGTF 129
Query: 148 LRRSFGSVLDIIPLADTVTKLTARCELCGKRAFFTLRKXXXXXXXIIGGADVYMPVCRQH 207
R+ FG++L+++PLA++V KLTA C C + A +T R +IGGAD Y VCR
Sbjct: 130 QRKPFGAILNLVPLAESVVKLTAVCMECFREAAYTKRLGTEKEVEVIGGADKYHSVCRLC 189
Query: 208 Y 208
Y
Sbjct: 190 Y 190
>pdb|2J87|A Chain A, Structure Of Vaccinia Virus Thymidine Kinase In Complex
With Dttp: Insights For Drug Design
pdb|2J87|B Chain B, Structure Of Vaccinia Virus Thymidine Kinase In Complex
With Dttp: Insights For Drug Design
pdb|2J87|C Chain C, Structure Of Vaccinia Virus Thymidine Kinase In Complex
With Dttp: Insights For Drug Design
pdb|2J87|D Chain D, Structure Of Vaccinia Virus Thymidine Kinase In Complex
With Dttp: Insights For Drug Design
Length = 177
Score = 134 bits (337), Expect = 5e-32, Method: Compositional matrix adjust.
Identities = 75/181 (41%), Positives = 100/181 (55%), Gaps = 7/181 (3%)
Query: 29 NSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDGAKLPC 88
N G I +I+GPMF+GK+T L+RR+R IK S D RY + THD
Sbjct: 2 NGGHIQLIIGPMFSGKSTELIRRVRRYQIAQYKCVTIKYSNDNRYG-TGLWTHDKNNFEA 60
Query: 89 WALPELTSFRQKLGDDAYAKLDVIGIDEAQFFEDLYEFCCNAADHDGKTVVVAGLDGDYL 148
+L Q + D VIGIDE QFF D+ EFC A+ +GK V+VA LDG +
Sbjct: 61 LEATKLCDVLQSITD-----FSVIGIDEGQFFPDIVEFCERMAN-EGKIVIVAALDGTFQ 114
Query: 149 RRSFGSVLDIIPLADTVTKLTARCELCGKRAFFTLRKXXXXXXXIIGGADVYMPVCRQHY 208
R+ F ++L+++ L++ V KLTA C C K A F+ R IIGG D+Y VCR+ Y
Sbjct: 115 RKPFNNILNLLILSEMVVKLTAVCMKCFKEASFSKRLGEETEIEIIGGNDMYQSVCRKCY 174
Query: 209 V 209
V
Sbjct: 175 V 175
>pdb|2JA1|A Chain A, Thymidine Kinase From B. Cereus With Ttp Bound As
Phosphate Donor
Length = 197
Score = 99.0 bits (245), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 66/185 (35%), Positives = 98/185 (52%), Gaps = 12/185 (6%)
Query: 29 NSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDGAKLPC 88
+G I VI G MF+GK+ L+RR+R ++ + K D RY+ + VV+H+G K+
Sbjct: 8 QNGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVK- 66
Query: 89 WALPELTSFRQKLGDDAYAKLDVIGIDEAQFFE-DLYEFCCNAADHDGKTVVVAGLDGDY 147
A+P S + + + +LDVI IDE QFF+ D+ E A+ G V+VAGLD D+
Sbjct: 67 -AVP--VSASKDIFEHITEELDVIAIDEVQFFDGDIVEVVQVLANR-GYRVIVAGLDQDF 122
Query: 148 LRRSFGSVLDIIPLADTVTKLTARCELCGKRAFFTLR------KXXXXXXXIIGGADVYM 201
FG V ++ +A+ VTKL A C +CG A T R ++G ++ Y
Sbjct: 123 RGLPFGQVPQLMAIAEHVTKLQAVCSVCGSPASRTQRLIDGEPAAFDDPIILVGASESYE 182
Query: 202 PVCRQ 206
P CR
Sbjct: 183 PRCRH 187
>pdb|1XX6|A Chain A, X-Ray Structure Of Clostridium Acetobutylicum Thymidine
Kinase With Adp. Northeast Structural Genomics Target
Car26.
pdb|1XX6|B Chain B, X-Ray Structure Of Clostridium Acetobutylicum Thymidine
Kinase With Adp. Northeast Structural Genomics Target
Car26
Length = 191
Score = 97.1 bits (240), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 60/191 (31%), Positives = 93/191 (48%), Gaps = 10/191 (5%)
Query: 28 RNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDGAKLP 87
++ G + VI+GP ++GK+ L+RRIR + I + K D RY+ + VV+H G K
Sbjct: 5 KDHGWVEVIVGPXYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHXGEKEQ 64
Query: 88 CWALPELTSFRQKLGDDAYAKLDVIGIDEAQFFEDLYEFCCNAADHDGKTVVVAGLDGDY 147
A+ + +D +VI IDE QFF+D N G+ V+ AGLD D+
Sbjct: 65 AVAIKNSREILKYFEEDT----EVIAIDEVQFFDDEIVEIVNKIAESGRRVICAGLDXDF 120
Query: 148 LRRSFGSVLDIIPLADTVTKLTARCELCGKRAFFTLR------KXXXXXXXIIGGADVYM 201
+ FG + ++ +A+ V K+ A C +CG A T R +IG + Y
Sbjct: 121 RGKPFGPIPELXAIAEFVDKIQAICVVCGNPATRTQRLINGKPAFYDDPVVLIGAXESYE 180
Query: 202 PVCRQHYVNGQ 212
CR+ +V Q
Sbjct: 181 ARCRKCHVVPQ 191
>pdb|2UZ3|A Chain A, Crystal Structure Of Thymidine Kinase With Dttp From U.
Urealyticum
pdb|2UZ3|B Chain B, Crystal Structure Of Thymidine Kinase With Dttp From U.
Urealyticum
pdb|2UZ3|C Chain C, Crystal Structure Of Thymidine Kinase With Dttp From U.
Urealyticum
pdb|2UZ3|D Chain D, Crystal Structure Of Thymidine Kinase With Dttp From U.
Urealyticum
Length = 243
Score = 96.7 bits (239), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 63/187 (33%), Positives = 90/187 (48%), Gaps = 12/187 (6%)
Query: 31 GEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDGAKLPCWA 90
G I I GPMFAGKT L+RR+ + K DTR +I ++ + G LP
Sbjct: 32 GWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTR-SIRNIQSRTGTSLPSVE 90
Query: 91 L---PELTSFRQKLGDDAYAKLDVIGIDEAQFFEDLYEFCCNAADHDGKTVVVAGLDGDY 147
+ PE+ ++ + + + VIGIDE QFF+D N +G V+++GLD ++
Sbjct: 91 VESAPEILNY--IMSNSFNDETKVIGIDEVQFFDDRICEVANILAENGFVVIISGLDKNF 148
Query: 148 LRRSFGSVLDIIPLADTVTKLTARCELCGKRAFFTLRKXXXXXXXI------IGGADVYM 201
FG + + AD +TKLTA C CG A +LRK IG + Y
Sbjct: 149 KGEPFGPIAKLFTYADKITKLTAICNECGAEATHSLRKIDGKHADYNDDIVKIGCQEFYS 208
Query: 202 PVCRQHY 208
VCR H+
Sbjct: 209 AVCRHHH 215
>pdb|2B8T|A Chain A, Crystal Structure Of Thymidine Kinase From U.Urealyticum
In Complex With Thymidine
pdb|2B8T|B Chain B, Crystal Structure Of Thymidine Kinase From U.Urealyticum
In Complex With Thymidine
pdb|2B8T|C Chain C, Crystal Structure Of Thymidine Kinase From U.Urealyticum
In Complex With Thymidine
pdb|2B8T|D Chain D, Crystal Structure Of Thymidine Kinase From U.Urealyticum
In Complex With Thymidine
Length = 223
Score = 96.7 bits (239), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 63/187 (33%), Positives = 90/187 (48%), Gaps = 12/187 (6%)
Query: 31 GEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDGAKLPCWA 90
G I I GPMFAGKT L+RR+ + K DTR +I ++ + G LP
Sbjct: 12 GWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTR-SIRNIQSRTGTSLPSVE 70
Query: 91 L---PELTSFRQKLGDDAYAKLDVIGIDEAQFFEDLYEFCCNAADHDGKTVVVAGLDGDY 147
+ PE+ ++ + + + VIGIDE QFF+D N +G V+++GLD ++
Sbjct: 71 VESAPEILNY--IMSNSFNDETKVIGIDEVQFFDDRICEVANILAENGFVVIISGLDKNF 128
Query: 148 LRRSFGSVLDIIPLADTVTKLTARCELCGKRAFFTLRKXXXXXXXI------IGGADVYM 201
FG + + AD +TKLTA C CG A +LRK IG + Y
Sbjct: 129 KGEPFGPIAKLFTYADKITKLTAICNECGAEATHSLRKIDGKHADYNDDIVKIGCQEFYS 188
Query: 202 PVCRQHY 208
VCR H+
Sbjct: 189 AVCRHHH 195
>pdb|2J9R|A Chain A, Thymidine Kinase From B. Anthracis In Complex With Dt
Length = 214
Score = 96.3 bits (238), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 65/185 (35%), Positives = 96/185 (51%), Gaps = 12/185 (6%)
Query: 29 NSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDGAKLPC 88
+G I VI G MF+GK+ L+RR+R ++ + K D RY+ + VV+H+G K+
Sbjct: 26 QNGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVK- 84
Query: 89 WALPELTSFRQKLGDDAYAKLDVIGIDEAQFFE-DLYEFCCNAADHDGKTVVVAGLDGDY 147
A+P S + + ++DVI IDE QFF+ D+ E A+ G V+VAGLD D+
Sbjct: 85 -AVP--VSASKDIFKHITEEMDVIAIDEVQFFDGDIVEVVQVLANR-GYRVIVAGLDQDF 140
Query: 148 LRRSFGSVLDIIPLADTVTKLTARCELCGKRAFFTLR------KXXXXXXXIIGGADVYM 201
FG V ++ +A+ VTKL A C CG A T R ++G ++ Y
Sbjct: 141 RGLPFGQVPQLMAIAEHVTKLQAVCSACGSPASRTQRLIDGEPAAFDDPIILVGASESYE 200
Query: 202 PVCRQ 206
P CR
Sbjct: 201 PRCRH 205
>pdb|3E2I|A Chain A, Crystal Structure Of Thymidine Kinase From S. Aureus
Length = 219
Score = 94.4 bits (233), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 58/187 (31%), Positives = 90/187 (48%), Gaps = 10/187 (5%)
Query: 29 NSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDGAKLPC 88
+SG I I G F+GK+ L+RR+R + + + K + D RY + VV+H+G +
Sbjct: 26 HSGWIECITGSXFSGKSEELIRRLRRGIYAKQKVVVFKPAIDDRYHKEKVVSHNGNAIEA 85
Query: 89 WALPELTSFRQKLGDDAYAKLDVIGIDEAQFFEDLYEFCCNAADHDGKTVVVAGLDGDYL 148
+ + + ++ +DVIGIDE QFF+D DG V+VAGLD D+
Sbjct: 86 INISKAS----EIXTHDLTNVDVIGIDEVQFFDDEIVSIVEKLSADGHRVIVAGLDXDFR 141
Query: 149 RRSFGSVLDIIPLADTVTKLTARCELCGKRAFFTLRKXXXXXXXI------IGGADVYMP 202
F + +++ VTKL A C +CG + T R I +G + Y P
Sbjct: 142 GEPFEPXPKLXAVSEQVTKLQAVCAVCGSSSSRTQRLINGKPAKIDDPIILVGANESYEP 201
Query: 203 VCRQHYV 209
CR H++
Sbjct: 202 RCRAHHI 208
>pdb|2ORW|A Chain A, Thermotoga Maritima Thymidine Kinase 1 Like Enzyme In
Complex With Tp4a
pdb|2ORW|B Chain B, Thermotoga Maritima Thymidine Kinase 1 Like Enzyme In
Complex With Tp4a
pdb|2QPO|A Chain A, Thermotoga Maritima Thymidine Kinase In The Apo Form
pdb|2QPO|B Chain B, Thermotoga Maritima Thymidine Kinase In The Apo Form
pdb|2QPO|C Chain C, Thermotoga Maritima Thymidine Kinase In The Apo Form
pdb|2QPO|D Chain D, Thermotoga Maritima Thymidine Kinase In The Apo Form
pdb|2QQ0|A Chain A, Thymidine Kinase From Thermotoga Maritima In Complex With
Thymidine + Appnhp
pdb|2QQ0|B Chain B, Thymidine Kinase From Thermotoga Maritima In Complex With
Thymidine + Appnhp
pdb|2QQE|A Chain A, Thymidine Kinase From Thermotoga Maritima In Complex With
Thymidine
pdb|2QQE|B Chain B, Thymidine Kinase From Thermotoga Maritima In Complex With
Thymidine
Length = 184
Score = 87.0 bits (214), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 59/181 (32%), Positives = 88/181 (48%), Gaps = 7/181 (3%)
Query: 30 SGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSVVTHDGAKLPCW 89
SG++ VI GPM++GKTT LL + + +A+ K D+RY +V+H G +
Sbjct: 2 SGKLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAH 61
Query: 90 ALPELTSFRQKLGDDAYAKLDVIGIDEAQFFE-DLYEFCCNAADHDGKTVVVAGLDGDYL 148
+ R+ + +D + IDE QFF L+E + D G V AGLD +
Sbjct: 62 VIERPEEMRKYIEEDTRG----VFIDEVQFFNPSLFEVVKDLLDR-GIDVFCAGLDLTHK 116
Query: 149 RRSFGSVLDIIPLADTVTKLTARCELCGK-RAFFTLRKXXXXXXXIIGGADVYMPVCRQH 207
+ F + ++ LADTV K A C CG+ A TL+ +GG + Y+ VCR
Sbjct: 117 QNPFETTALLLSLADTVIKKKAVCHRCGEYNATLTLKVAGGEEEIDVGGQEKYIAVCRDC 176
Query: 208 Y 208
Y
Sbjct: 177 Y 177
>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 = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 56 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 103
>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 = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 55 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 102
>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 = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 59 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 106
>pdb|3CMU|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
Length = 2050
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 30 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 77
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 379 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 426
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 728 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 775
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 1077 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 1124
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 1423 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 1470
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 1771 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 1818
>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 = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 30 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 77
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 379 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 426
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 728 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 775
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 1078 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 1125
Score = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 1427 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 1474
>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 = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 30 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 77
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 379 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 426
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 728 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 775
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 27/55 (49%), Gaps = 7/55 (12%)
Query: 24 GLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGRNIAMIKSSKDTRYAIDSV 78
GLP G I I GP +GKTT L+ I + G+ A I D +A+D +
Sbjct: 1078 GLPM---GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 1125
>pdb|2ZXQ|A Chain A, Crystal Structure Of Endo-Alpha-N-Acetylgalactosaminidase
From Bifidobacterium Longum (Engbf)
Length = 1376
Score = 28.1 bits (61), Expect = 4.8, Method: Composition-based stats.
Identities = 30/109 (27%), Positives = 46/109 (42%), Gaps = 11/109 (10%)
Query: 1 MAASNLKPAAVTTNQVNSGRDRVGLPHRNSGEIHVIMGPMFAGKTTALLRRIRSESDNGR 60
+ A N AAV+ N+G +++ L N + V G + T++ R R+ + NG
Sbjct: 612 LTADNGNAAAVSDPNTNNGNEQITLKDSNGNVVVVSRG---SNDTSSAAYRQRTITFNG- 667
Query: 61 NIAMIKSSKDTRYAIDSVVTHDGAKLPCWALPELTSFRQKLGDDAYAKL 109
+K + A D T D + L W SF KL D+ KL
Sbjct: 668 ----VKVASGVVSAGDGSATGDESYLLPWM---WDSFTGKLVKDSEQKL 709
>pdb|2D2E|A Chain A, Crystal Structure Of Atypical Cytoplasmic Abc-Atpase
Sufc From Thermus Thermophilus Hb8
pdb|2D2F|A Chain A, Crystal Structure Of Atypical Cytoplasmic Abc-Atpase
Sufc From Thermus Thermophilus Hb8
Length = 250
Score = 27.3 bits (59), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 10/17 (58%), Positives = 13/17 (76%)
Query: 30 SGEIHVIMGPMFAGKTT 46
GE+H +MGP AGK+T
Sbjct: 28 KGEVHALMGPNGAGKST 44
>pdb|3KN3|A Chain A, Crystal Structure Of Lysr Substrate Binding Domain
(25-263) Of Putative Periplasmic Protein From Wolinella
Succinogenes
pdb|3KN3|B Chain B, Crystal Structure Of Lysr Substrate Binding Domain
(25-263) Of Putative Periplasmic Protein From Wolinella
Succinogenes
pdb|3KN3|C Chain C, Crystal Structure Of Lysr Substrate Binding Domain
(25-263) Of Putative Periplasmic Protein From Wolinella
Succinogenes
Length = 242
Score = 27.3 bits (59), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 31/70 (44%)
Query: 91 LPELTSFRQKLGDDAYAKLDVIGIDEAQFFEDLYEFCCNAADHDGKTVVVAGLDGDYLRR 150
+PE S+ + G A +++ + D F ++H GK V L+GD +
Sbjct: 141 IPEKESWYIEAGQGXLATINIAEEQKGLTLTDRGTFIKYESNHKGKPPXVIVLEGDNTLK 200
Query: 151 SFGSVLDIIP 160
+F S+ + P
Sbjct: 201 NFYSIXAVNP 210
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
0.322 0.136 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,559,126
Number of Sequences: 62578
Number of extensions: 258512
Number of successful extensions: 559
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 512
Number of HSP's gapped (non-prelim): 35
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)