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= 023563
(280 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 = 142 bits (359), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 87/195 (44%), Positives = 114/195 (58%), Gaps = 16/195 (8%)
Query: 71 ASVSSPSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDG 130
S S G+I VI+GPMF+GK+T L+RR++ VIK KDTRY S THD
Sbjct: 12 GSPSKTRGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDR 70
Query: 131 ---VKLPCCALTTLSSFRQKFGSDAYDQVDVIGIDEAQFFEDLYDFCREAADHDGKTVIV 187
LP C L ++ ++ G V VIGIDE QFF D+ +FC EA + GKTVIV
Sbjct: 71 NTMEALPACLLRDVA--QEALG------VAVIGIDEGQFFPDIVEFC-EAMANAGKTVIV 121
Query: 188 AGLDGDYLRRSFGSVIDIIPLADSVTKLTARCEFCGKRAFFTLRXXXXXXXXLIGGSDIY 247
A LDG + R+ FG++++++PLA+SV KLTA C C + A +T R +IGG+D Y
Sbjct: 122 AALDGTFQRKPFGAILNLVPLAESVVKLTAVCMECFREAAYTKRLGTEKEVEVIGGADKY 181
Query: 248 MPVCRQHY---VSGQ 259
VCR Y SGQ
Sbjct: 182 HSVCRLCYFKKASGQ 196
>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 = 142 bits (357), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 84/188 (44%), Positives = 111/188 (59%), Gaps = 13/188 (6%)
Query: 71 ASVSSPSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDG 130
S S G+I VI+GPMF+GK+T L+RR++ VIK KDTRY S THD
Sbjct: 12 GSPSKTRGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDR 70
Query: 131 ---VKLPCCALTTLSSFRQKFGSDAYDQVDVIGIDEAQFFEDLYDFCREAADHDGKTVIV 187
LP C L ++ ++ G V VIGIDE QFF D+ +FC EA + GKTVIV
Sbjct: 71 NTMEALPACLLRDVA--QEALG------VAVIGIDEGQFFPDIVEFC-EAMANAGKTVIV 121
Query: 188 AGLDGDYLRRSFGSVIDIIPLADSVTKLTARCEFCGKRAFFTLRXXXXXXXXLIGGSDIY 247
A LDG + R+ FG++++++PLA+SV KLTA C C + A +T R +IGG+D Y
Sbjct: 122 AALDGTFQRKPFGAILNLVPLAESVVKLTAVCMECFREAAYTKRLGTEKEVEVIGGADKY 181
Query: 248 MPVCRQHY 255
VCR Y
Sbjct: 182 HSVCRLCY 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 = 141 bits (355), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 83/185 (44%), Positives = 110/185 (59%), Gaps = 13/185 (7%)
Query: 74 SSPSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDG--- 130
S G+I VI+GPMF+GK+T L+RR++ VIK KDTRY S THD
Sbjct: 16 SKTRGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDRNTM 74
Query: 131 VKLPCCALTTLSSFRQKFGSDAYDQVDVIGIDEAQFFEDLYDFCREAADHDGKTVIVAGL 190
LP C L ++ ++ G V VIGIDE QFF D+ +FC EA + GKTVIVA L
Sbjct: 75 EALPACLLRDVA--QEALG------VAVIGIDEGQFFPDIVEFC-EAMANAGKTVIVAAL 125
Query: 191 DGDYLRRSFGSVIDIIPLADSVTKLTARCEFCGKRAFFTLRXXXXXXXXLIGGSDIYMPV 250
DG + R+ FG++++++PLA+SV KLTA C C + A +T R +IGG+D Y V
Sbjct: 126 DGTFQRKPFGAILNLVPLAESVVKLTAVCMECFREAAYTKRLGTEKEVEVIGGADKYHSV 185
Query: 251 CRQHY 255
CR Y
Sbjct: 186 CRLCY 190
>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 = 140 bits (353), Expect = 7e-34, Method: Compositional matrix adjust.
Identities = 83/188 (44%), Positives = 111/188 (59%), Gaps = 13/188 (6%)
Query: 71 ASVSSPSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDG 130
S S G+I VI+GPMF+GK+T L+RR++ VIK KDTRY S THD
Sbjct: 12 GSPSKTRGQIQVILGPMFSGKSTELMRRVRRFQIAQYKCLVIKYAKDTRYS-SSFCTHDR 70
Query: 131 ---VKLPCCALTTLSSFRQKFGSDAYDQVDVIGIDEAQFFEDLYDFCREAADHDGKTVIV 187
LP C L ++ ++ G V VIGIDE QFF D+ +FC EA + GKTVIV
Sbjct: 71 NTMEALPACLLRDVA--QEALG------VAVIGIDEGQFFPDIVEFC-EAMANAGKTVIV 121
Query: 188 AGLDGDYLRRSFGSVIDIIPLADSVTKLTARCEFCGKRAFFTLRXXXXXXXXLIGGSDIY 247
A LDG + R+ FG++++++PLA+SV KLTA C C + A ++ R +IGG+D Y
Sbjct: 122 AALDGTFQRKPFGAILNLVPLAESVVKLTAVCMECFREAAYSKRLGTEKEVEVIGGADKY 181
Query: 248 MPVCRQHY 255
VCR Y
Sbjct: 182 HSVCRLCY 189
>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 = 129 bits (323), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 71/181 (39%), Positives = 100/181 (55%), Gaps = 7/181 (3%)
Query: 77 SGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDGVKLPCC 136
G I +I+GPMF+GK+T L+RR++ IK + D RYG + THD
Sbjct: 3 GGHIQLIIGPMFSGKSTELIRRVRRYQIAQYKCVTIKYSNDNRYG-TGLWTHDKNNFEAL 61
Query: 137 ALTTLSSFRQKFGSDAYDQVDVIGIDEAQFFEDLYDFCREAADHDGKTVIVAGLDGDYLR 196
T L Q + VIGIDE QFF D+ +FC A+ +GK VIVA LDG + R
Sbjct: 62 EATKLCDVLQ-----SITDFSVIGIDEGQFFPDIVEFCERMAN-EGKIVIVAALDGTFQR 115
Query: 197 RSFGSVIDIIPLADSVTKLTARCEFCGKRAFFTLRXXXXXXXXLIGGSDIYMPVCRQHYV 256
+ F ++++++ L++ V KLTA C C K A F+ R +IGG+D+Y VCR+ YV
Sbjct: 116 KPFNNILNLLILSEMVVKLTAVCMKCFKEASFSKRLGEETEIEIIGGNDMYQSVCRKCYV 175
Query: 257 S 257
Sbjct: 176 G 176
>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 = 99.4 bits (246), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 64/191 (33%), Positives = 88/191 (46%), Gaps = 8/191 (4%)
Query: 72 SVSSPSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDGV 131
+ S G I I GPMFAGKT L+RR+ V K DTR + +I + G
Sbjct: 6 AFSKKIGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTR-SIRNIQSRTGT 64
Query: 132 KLPCCALTTLSSFRQKFGSDAY-DQVDVIGIDEAQFFEDLYDFCREAADHDGKTVIVAGL 190
LP + + S+++ D+ VIGIDE QFF+D +G VI++GL
Sbjct: 65 SLPSVEVESAPEILNYIMSNSFNDETKVIGIDEVQFFDDRICEVANILAENGFVVIISGL 124
Query: 191 DGDYLRRSFGSVIDIIPLADSVTKLTARCEFCGKRAFFTLRXXXXXXXXL------IGGS 244
D ++ FG + + AD +TKLTA C CG A +LR IG
Sbjct: 125 DKNFKGEPFGPIAKLFTYADKITKLTAICNECGAEATHSLRKIDGKHADYNDDIVKIGCQ 184
Query: 245 DIYMPVCRQHY 255
+ Y VCR H+
Sbjct: 185 EFYSAVCRHHH 195
>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 = 99.4 bits (246), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 64/191 (33%), Positives = 88/191 (46%), Gaps = 8/191 (4%)
Query: 72 SVSSPSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDGV 131
+ S G I I GPMFAGKT L+RR+ V K DTR + +I + G
Sbjct: 26 AFSKKIGWIEFITGPMFAGKTAELIRRLHRLEYADVKYLVFKPKIDTR-SIRNIQSRTGT 84
Query: 132 KLPCCALTTLSSFRQKFGSDAY-DQVDVIGIDEAQFFEDLYDFCREAADHDGKTVIVAGL 190
LP + + S+++ D+ VIGIDE QFF+D +G VI++GL
Sbjct: 85 SLPSVEVESAPEILNYIMSNSFNDETKVIGIDEVQFFDDRICEVANILAENGFVVIISGL 144
Query: 191 DGDYLRRSFGSVIDIIPLADSVTKLTARCEFCGKRAFFTLRXXXXXXXXL------IGGS 244
D ++ FG + + AD +TKLTA C CG A +LR IG
Sbjct: 145 DKNFKGEPFGPIAKLFTYADKITKLTAICNECGAEATHSLRKIDGKHADYNDDIVKIGCQ 204
Query: 245 DIYMPVCRQHY 255
+ Y VCR H+
Sbjct: 205 EFYSAVCRHHH 215
>pdb|3E2I|A Chain A, Crystal Structure Of Thymidine Kinase From S. Aureus
Length = 219
Score = 98.2 bits (243), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 62/186 (33%), Positives = 89/186 (47%), Gaps = 10/186 (5%)
Query: 77 SGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDGVKLPCC 136
SG I I G F+GK+ L+RR++ + V V K D RY + +V+H+G +
Sbjct: 27 SGWIECITGSXFSGKSEELIRRLRRGIYAKQKVVVFKPAIDDRYHKEKVVSHNGNAIEAI 86
Query: 137 ALTTLSSFRQKFGSDAYDQVDVIGIDEAQFFEDLYDFCREAADHDGKTVIVAGLDGDYLR 196
++ S + + VDVIGIDE QFF+D E DG VIVAGLD D+
Sbjct: 87 NISKAS----EIXTHDLTNVDVIGIDEVQFFDDEIVSIVEKLSADGHRVIVAGLDXDFRG 142
Query: 197 RSFGSVIDIIPLADSVTKLTARCEFCGKRAFFTLRXXXXXXXX------LIGGSDIYMPV 250
F + +++ VTKL A C CG + T R L+G ++ Y P
Sbjct: 143 EPFEPXPKLXAVSEQVTKLQAVCAVCGSSSSRTQRLINGKPAKIDDPIILVGANESYEPR 202
Query: 251 CRQHYV 256
CR H++
Sbjct: 203 CRAHHI 208
>pdb|2JA1|A Chain A, Thymidine Kinase From B. Cereus With Ttp Bound As
Phosphate Donor
Length = 197
Score = 98.2 bits (243), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 63/184 (34%), Positives = 95/184 (51%), Gaps = 12/184 (6%)
Query: 77 SGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDGVKLPCC 136
+G I VI G MF+GK+ L+RR++ ++ V K D RY + +V+H+G+K+
Sbjct: 9 NGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVKAV 68
Query: 137 ALTTLSSFRQKFGSDAYDQVDVIGIDEAQFFE-DLYDFCREAADHDGKTVIVAGLDGDYL 195
++ + +++DVI IDE QFF+ D+ + + A+ G VIVAGLD D+
Sbjct: 69 PVSASKDIFEHI----TEELDVIAIDEVQFFDGDIVEVVQVLANR-GYRVIVAGLDQDFR 123
Query: 196 RRSFGSVIDIIPLADSVTKLTARCEFCGKRAFFTLRXXXXXXXX------LIGGSDIYMP 249
FG V ++ +A+ VTKL A C CG A T R L+G S+ Y P
Sbjct: 124 GLPFGQVPQLMAIAEHVTKLQAVCSVCGSPASRTQRLIDGEPAAFDDPIILVGASESYEP 183
Query: 250 VCRQ 253
CR
Sbjct: 184 RCRH 187
>pdb|2J9R|A Chain A, Thymidine Kinase From B. Anthracis In Complex With Dt
Length = 214
Score = 97.1 bits (240), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 63/184 (34%), Positives = 95/184 (51%), Gaps = 12/184 (6%)
Query: 77 SGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDGVKLPCC 136
+G I VI G MF+GK+ L+RR++ ++ V K D RY + +V+H+G+K+
Sbjct: 27 NGWIEVICGSMFSGKSEELIRRVRRTQFAKQHAIVFKPCIDNRYSEEDVVSHNGLKVKAV 86
Query: 137 ALTTLSSFRQKFGSDAYDQVDVIGIDEAQFFE-DLYDFCREAADHDGKTVIVAGLDGDYL 195
++ + +++DVI IDE QFF+ D+ + + A+ G VIVAGLD D+
Sbjct: 87 PVSASKDIFKHI----TEEMDVIAIDEVQFFDGDIVEVVQVLANR-GYRVIVAGLDQDFR 141
Query: 196 RRSFGSVIDIIPLADSVTKLTARCEFCGKRAFFTLRXXXXXXXX------LIGGSDIYMP 249
FG V ++ +A+ VTKL A C CG A T R L+G S+ Y P
Sbjct: 142 GLPFGQVPQLMAIAEHVTKLQAVCSACGSPASRTQRLIDGEPAAFDDPIILVGASESYEP 201
Query: 250 VCRQ 253
CR
Sbjct: 202 RCRH 205
>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 = 95.5 bits (236), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 62/189 (32%), Positives = 93/189 (49%), Gaps = 12/189 (6%)
Query: 78 GEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDGVKLPCCA 137
G + VIVGP ++GK+ L+RRI+ + + V K D RY + +V+H G K A
Sbjct: 8 GWVEVIVGPXYSGKSEELIRRIRRAKIAKQKIQVFKPEIDNRYSKEDVVSHXGEKEQAVA 67
Query: 138 LTTLSSFRQKFGSDAYDQVDVIGIDEAQFFED-LYDFCREAADHDGKTVIVAGLDGDYLR 196
+ + F D +VI IDE QFF+D + + + A+ G+ VI AGLD D+
Sbjct: 68 IKNSREILKYFEEDT----EVIAIDEVQFFDDEIVEIVNKIAES-GRRVICAGLDXDFRG 122
Query: 197 RSFGSVIDIIPLADSVTKLTARCEFCGKRAFFTLRXXXXXXX------XLIGGSDIYMPV 250
+ FG + ++ +A+ V K+ A C CG A T R LIG + Y
Sbjct: 123 KPFGPIPELXAIAEFVDKIQAICVVCGNPATRTQRLINGKPAFYDDPVVLIGAXESYEAR 182
Query: 251 CRQHYVSGQ 259
CR+ +V Q
Sbjct: 183 CRKCHVVPQ 191
>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 = 86.3 bits (212), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 60/181 (33%), Positives = 88/181 (48%), Gaps = 7/181 (3%)
Query: 77 SGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSIVTHDGVKLPCC 136
SG++ VI GPM++GKTT LL ++ + VAV K D+RY IV+H G +
Sbjct: 2 SGKLTVITGPMYSGKTTELLSFVEIYKLGKKKVAVFKPKIDSRYHSTMIVSHSGNGVEAH 61
Query: 137 ALTTLSSFRQKFGSDAYDQVDVIGIDEAQFFE-DLYDFCREAADHDGKTVIVAGLDGDYL 195
+ R+ D + IDE QFF L++ ++ D G V AGLD +
Sbjct: 62 VIERPEEMRKYIEEDTRG----VFIDEVQFFNPSLFEVVKDLLDR-GIDVFCAGLDLTHK 116
Query: 196 RRSFGSVIDIIPLADSVTKLTARCEFCGK-RAFFTLRXXXXXXXXLIGGSDIYMPVCRQH 254
+ F + ++ LAD+V K A C CG+ A TL+ +GG + Y+ VCR
Sbjct: 117 QNPFETTALLLSLADTVIKKKAVCHRCGEYNATLTLKVAGGEEEIDVGGQEKYIAVCRDC 176
Query: 255 Y 255
Y
Sbjct: 177 Y 177
>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 = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 32 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 77
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 381 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 426
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 730 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 775
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 1080 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 1125
>pdb|3CMU|A Chain A, Mechanism Of Homologous Recombination From The Reca-
SsdnaDSDNA STRUCTURES
Length = 2050
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 32 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 77
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 381 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 426
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 730 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 775
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 1079 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 1124
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 1425 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 1470
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 1773 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----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 = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 32 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 77
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 381 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 426
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 730 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 775
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 1080 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 1125
Score = 33.5 bits (75), Expect = 0.12, Method: Composition-based stats.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 1429 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 1474
>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 = 31.2 bits (69), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 58 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----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 = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 57 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----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 = 31.2 bits (69), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 26/50 (52%), Gaps = 4/50 (8%)
Query: 76 PSGEIHVIVGPMFAGKTTTLLRRIQAETQKGRNVAVIKSNKDTRYGLDSI 125
P G I I GP +GKTT L+ I A ++G+ A I D + LD I
Sbjct: 61 PMGRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFI----DAEHALDPI 106
>pdb|4G1U|C Chain C, X-Ray Structure Of The Bacterial Heme Transporter Hmuuv
From Yersinia Pestis
pdb|4G1U|D Chain D, X-Ray Structure Of The Bacterial Heme Transporter Hmuuv
From Yersinia Pestis
Length = 266
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 23/36 (63%)
Query: 60 FSLQNRNLHSEASVSSPSGEIHVIVGPMFAGKTTTL 95
+ +Q + L ++ S+ SGE+ I+GP AGK+T L
Sbjct: 19 YHVQQQALINDVSLHIASGEMVAIIGPNGAGKSTLL 54
>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 = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 22/43 (51%)
Query: 51 SMVSPRPPLFSLQNRNLHSEASVSSPSGEIHVIVGPMFAGKTT 93
S + R S+ + ++ P GE+H ++GP AGK+T
Sbjct: 2 SQLEIRDLWASIDGETILKGVNLVVPKGEVHALMGPNGAGKST 44
>pdb|4AYT|A Chain A, Structure Of The Human Mitochondrial Abc Transporter,
Abcb10
pdb|4AYX|A Chain A, Structure Of The Human Mitochondrial Abc Transporter,
Abcb10 (Rod Form B)
pdb|3ZDQ|A Chain A, Structure Of The Human Mitochondrial Abc Transporter,
Abcb10 (nucleotide-free Form)
Length = 595
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 27/56 (48%), Gaps = 9/56 (16%)
Query: 40 ATSLRNPKFIHSMVSPRPPLFSLQNRNLHSEASVSSPSGEIHVIVGPMFAGKTTTL 95
A +N F + P P+F + S+S PSG + +VGP +GK+T L
Sbjct: 341 ALEFKNVHFAYP-ARPEVPIFQ--------DFSLSIPSGSVTALVGPSGSGKSTVL 387
>pdb|4AYW|A Chain A, Structure Of The Human Mitochondrial Abc Transporter,
Abcb10 (plate Form)
Length = 619
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 10/51 (19%)
Query: 47 KFIHSMVSPRP--PLFSLQNRNLHSEASVSSPSGEIHVIVGPMFAGKTTTL 95
K +H RP P+F + S+S PSG + +VGP +GK+T L
Sbjct: 376 KNVHFAYPARPEVPIFQ--------DFSLSIPSGSVTALVGPSGSGKSTVL 418
>pdb|3D31|A Chain A, Modbc From Methanosarcina Acetivorans
pdb|3D31|B Chain B, Modbc From Methanosarcina Acetivorans
Length = 348
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 20/36 (55%), Gaps = 6/36 (16%)
Query: 60 FSLQNRNLHSEASVSSPSGEIHVIVGPMFAGKTTTL 95
FSL N +L E SGE VI+GP AGKT L
Sbjct: 14 FSLDNLSLKVE------SGEYFVILGPTGAGKTLFL 43
>pdb|2ZU0|C Chain C, Crystal Structure Of Sufc-Sufd Complex Involved In The
Iron- Sulfur Cluster Biosynthesis
pdb|2ZU0|D Chain D, Crystal Structure Of Sufc-Sufd Complex Involved In The
Iron- Sulfur Cluster Biosynthesis
Length = 267
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 4/64 (6%)
Query: 46 PKFIHSMVSPRPPLFSLQNRNLHSEASVSSPSGEIHVIVGPMFAGKTT---TLLRRIQAE 102
P+ H M+S + S++++ + S+ GE+H I+GP +GK+T TL R E
Sbjct: 15 PRGSH-MLSIKDLHVSVEDKAILRGLSLDVHPGEVHAIMGPNGSGKSTLSATLAGREDYE 73
Query: 103 TQKG 106
G
Sbjct: 74 VTGG 77
>pdb|2D3W|A Chain A, Crystal Structure Of Escherichia Coli Sufc, An Atpase
Compenent Of The Suf Iron-Sulfur Cluster Assembly
Machinery
pdb|2D3W|B Chain B, Crystal Structure Of Escherichia Coli Sufc, An Atpase
Compenent Of The Suf Iron-Sulfur Cluster Assembly
Machinery
pdb|2D3W|C Chain C, Crystal Structure Of Escherichia Coli Sufc, An Atpase
Compenent Of The Suf Iron-Sulfur Cluster Assembly
Machinery
pdb|2D3W|D Chain D, Crystal Structure Of Escherichia Coli Sufc, An Atpase
Compenent Of The Suf Iron-Sulfur Cluster Assembly
Machinery
Length = 248
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 25/42 (59%)
Query: 52 MVSPRPPLFSLQNRNLHSEASVSSPSGEIHVIVGPMFAGKTT 93
M+S + S++++ + S+ GE+H I+GP +GK+T
Sbjct: 1 MLSIKDLHVSVEDKAILRGLSLDVHPGEVHAIMGPNGSGKST 42
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 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,465,953
Number of Sequences: 62578
Number of extensions: 286045
Number of successful extensions: 789
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 728
Number of HSP's gapped (non-prelim): 54
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
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: 51 (24.3 bits)