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= psy3997
(256 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|B Chain B, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|C Chain C, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|D Chain D, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|E Chain E, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|F Chain F, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|G Chain G, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|H Chain H, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|I Chain I, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|J Chain J, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|K Chain K, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|L Chain L, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|M Chain M, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|N Chain N, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
Length = 301
Score = 62.4 bits (150), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 41/127 (32%), Positives = 66/127 (51%), Gaps = 16/127 (12%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
VL +GPPG GKT L KA+A + FI I L + +F ES V+++F+
Sbjct: 52 VLFYGPPGCGKTLLAKAIANECQ---------ANFISIKGPELLTMWFGESEANVREIFD 102
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLK-KKSTG 137
K ++A + L DE++S+ +AR + + RV+N +LT++D + KK+
Sbjct: 103 KARQA-----APCVLFFDELDSIAKARGGNIGDGGGA-ADRVINQILTEMDGMSTKKNVF 156
Query: 138 LSGRTLR 144
+ G T R
Sbjct: 157 IIGATNR 163
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 61.6 bits (148), Expect = 4e-10, Method: Composition-based stats.
Identities = 41/127 (32%), Positives = 65/127 (51%), Gaps = 16/127 (12%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
VL +GPPG GKT L KA+A + FI I L + +F ES V+++F+
Sbjct: 514 VLFYGPPGCGKTLLAKAIANECQ---------ANFISIKGPELLTMWFGESEANVREIFD 564
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLK-KKSTG 137
K ++A L DE++S+ +AR + + RV+N +LT++D + KK+
Sbjct: 565 KARQAAP-----CVLFFDELDSIAKARGGNIGDGGGA-ADRVINQILTEMDGMSTKKNVF 618
Query: 138 LSGRTLR 144
+ G T R
Sbjct: 619 IIGATNR 625
Score = 52.8 bits (125), Expect = 2e-07, Method: Composition-based stats.
Identities = 38/119 (31%), Positives = 62/119 (52%), Gaps = 18/119 (15%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKM 76
R +LL+GPPGTGKT + +AVA + F IN + SK ES ++K
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG---------AFFFLINGPEIMSKLAGESESNLRKA 289
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKS 135
F +EA + +++ IDE++++ RE E R+V+ +LT +D LK+++
Sbjct: 290 F---EEAEKNAPAII--FIDELDAIAPKREKTHGEVER----RIVSQLLTLMDGLKQRA 339
>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF2|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|D Chain D, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF3|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADP
Length = 806
Score = 61.6 bits (148), Expect = 4e-10, Method: Composition-based stats.
Identities = 41/127 (32%), Positives = 65/127 (51%), Gaps = 16/127 (12%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
VL +GPPG GKT L KA+A + FI I L + +F ES V+++F+
Sbjct: 514 VLFYGPPGCGKTLLAKAIANECQ---------ANFISIKGPELLTMWFGESEANVREIFD 564
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLK-KKSTG 137
K ++A L DE++S+ +AR + + RV+N +LT++D + KK+
Sbjct: 565 KARQAAP-----CVLFFDELDSIAKARGGNIGDGGGA-ADRVINQILTEMDGMSTKKNVF 618
Query: 138 LSGRTLR 144
+ G T R
Sbjct: 619 IIGATNR 625
Score = 52.8 bits (125), Expect = 2e-07, Method: Composition-based stats.
Identities = 38/119 (31%), Positives = 62/119 (52%), Gaps = 18/119 (15%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKM 76
R +LL+GPPGTGKT + +AVA + F IN + SK ES ++K
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG---------AFFFLINGPEIMSKLAGESESNLRKA 289
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKS 135
F +EA + +++ IDE++++ RE E R+V+ +LT +D LK+++
Sbjct: 290 F---EEAEKNAPAII--FIDELDAIAPKREKTHGEVER----RIVSQLLTLMDGLKQRA 339
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 60.8 bits (146), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 38/117 (32%), Positives = 58/117 (49%), Gaps = 15/117 (12%)
Query: 13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKL 72
I R VLL+GPPGTGKT L KAVA FI +N KY E ++
Sbjct: 203 IDPPRGVLLYGPPGTGKTMLVKAVANSTK---------AAFIRVNGSEFVHKYLGEGPRM 253
Query: 73 VQKMFNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQID 129
V+ +F + E + + IDE++S+ R +G++ + R++ +LTQ+D
Sbjct: 254 VRDVFR-----LARENAPSIIFIDEVDSIATKRFDAQTGSD-REVQRILIELLTQMD 304
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 40/117 (34%), Positives = 60/117 (51%), Gaps = 20/117 (17%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
VLL GPPG GKT L KAVA + + FI + L + Y ES + V+++F
Sbjct: 47 VLLAGPPGCGKTLLAKAVANESGL---------NFISVKGPELLNMYVGESERAVRQVFQ 97
Query: 79 KIKEAVEYEESLVCLL-IDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKK 134
+ K S C++ DE+++L R +G VRVVN +LT++D L+ +
Sbjct: 98 RAK------NSAPCVIFFDEVDALCPRRSDRETGAS----VRVVNQLLTEMDGLEAR 144
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 39/120 (32%), Positives = 62/120 (51%), Gaps = 18/120 (15%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL+GPPGTGK+ L KAVA + + + F ++S L SK+ ES KLV+++F
Sbjct: 63 ILLYGPPGTGKSYLAKAVATEAN---------STFFSVSSSDLVSKWMGESEKLVKQLF- 112
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKSTGL 138
A+ E + IDE+++LT R E R+ +L Q++ + S G+
Sbjct: 113 ----AMARENKPSIIFIDEVDALTGTRGE----GESEASRRIKTELLVQMNGVGNDSQGV 164
>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4
pdb|2QPA|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
Length = 355
Score = 58.2 bits (139), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 38/120 (31%), Positives = 62/120 (51%), Gaps = 18/120 (15%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL+GPPGTGK+ L KAVA + + + F ++S L SK+ ES KLV+++F
Sbjct: 87 ILLYGPPGTGKSYLAKAVATEAN---------STFFSVSSSDLVSKWMGESEKLVKQLF- 136
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKSTGL 138
A+ E + ID++++LT R E R+ +L Q++ + S G+
Sbjct: 137 ----AMARENKPSIIFIDQVDALTGTRGE----GESEASRRIKTELLVQMNGVGNDSQGV 188
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 58.2 bits (139), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 38/120 (31%), Positives = 62/120 (51%), Gaps = 18/120 (15%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL+GPPGTGK+ L KAVA + + + F ++S L SK+ ES KLV+++F
Sbjct: 54 ILLYGPPGTGKSYLAKAVATEAN---------STFFSVSSSDLVSKWMGESEKLVKQLF- 103
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKSTGL 138
A+ E + ID++++LT R E R+ +L Q++ + S G+
Sbjct: 104 ----AMARENKPSIIFIDQVDALTGTRGE----GESEASRRIKTELLVQMNGVGNDSQGV 155
>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
Length = 340
Score = 57.8 bits (138), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 38/120 (31%), Positives = 62/120 (51%), Gaps = 18/120 (15%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL+GPPGTGK+ L KAVA + + + F ++S L SK+ ES KLV+++F
Sbjct: 72 ILLYGPPGTGKSYLAKAVATEAN---------STFFSVSSSDLVSKWMGESEKLVKQLF- 121
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKSTGL 138
A+ E + ID++++LT R E R+ +L Q++ + S G+
Sbjct: 122 ----AMARENKPSIIFIDQVDALTGTRGE----GESEASRRIKTELLVQMNGVGNDSQGV 173
>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form
pdb|2ZAN|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ATP-Form
pdb|2ZAO|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ADP-Form
Length = 444
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 44/135 (32%), Positives = 64/135 (47%), Gaps = 18/135 (13%)
Query: 15 WNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQ 74
W R +LL GPPGTGK+ L KAVA ++ + F I+S L SK+ ES KLV+
Sbjct: 167 W-RGILLFGPPGTGKSYLAKAVA--------TEANNSTFFSISSSDLVSKWLGESEKLVK 217
Query: 75 KMFNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKK 134
+F + E + IDEI+SL +R S E R+ L Q+ +
Sbjct: 218 NLFQ-----LARENKPSIIFIDEIDSLCGSR----SENESEAARRIKTEFLVQMQGVGVD 268
Query: 135 STGLSGRTLRKIPFL 149
+ G+ IP++
Sbjct: 269 NDGILVLGATNIPWV 283
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 43/133 (32%), Positives = 63/133 (47%), Gaps = 17/133 (12%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKM 76
R +LL GPPGTGK+ L KAVA ++ + F I+S L SK+ ES KLV+ +
Sbjct: 46 RGILLFGPPGTGKSYLAKAVA--------TEANNSTFFSISSSDLVSKWLGESEKLVKNL 97
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKST 136
F + E + IDEI+SL +R S E R+ L Q+ + +
Sbjct: 98 FQ-----LARENKPSIIFIDEIDSLCGSR----SENESEAARRIKTEFLVQMQGVGVDND 148
Query: 137 GLSGRTLRKIPFL 149
G+ IP++
Sbjct: 149 GILVLGATNIPWV 161
>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
pdb|3H4M|B Chain B, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
pdb|3H4M|C Chain C, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
Length = 285
Score = 55.1 bits (131), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 37/116 (31%), Positives = 55/116 (47%), Gaps = 19/116 (16%)
Query: 13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKL 72
I + +LL+GPPGTGKT L KAVA + + FI + L K+ E L
Sbjct: 48 IEPPKGILLYGPPGTGKTLLAKAVATETN---------ATFIRVVGSELVKKFIGEGASL 98
Query: 73 VQKMFNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQI 128
V+ +F K E++ + IDEI+++ R ++G G R V L Q+
Sbjct: 99 VKDIFKLAK-----EKAPSIIFIDEIDAIAAKRTDALTG-----GDREVQRTLMQL 144
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 59/117 (50%), Gaps = 15/117 (12%)
Query: 13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKL 72
I+ + V+L+GPPGTGKT L +AVA + FI ++ L KY E ++
Sbjct: 179 IAQPKGVILYGPPGTGKTLLARAVAHHTDCK---------FIRVSGAELVQKYIGEGSRM 229
Query: 73 VQKMFNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQID 129
V+++F + E + + +DEI+S+ R SG S+ R + +L Q+D
Sbjct: 230 VRELF-----VMAREHAPSIIFMDEIDSIGSTRVE-GSGGGDSEVQRTMLELLNQLD 280
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 34/85 (40%), Positives = 45/85 (52%), Gaps = 14/85 (16%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKM 76
R +LL GPPG GKT L KAVA + + F I++ SL SKY E KLV+ +
Sbjct: 149 RGLLLFGPPGNGKTMLAKAVAAESN---------ATFFNISAASLTSKYVGEGEKLVRAL 199
Query: 77 FNKIKEAVEYEESLVCLLIDEIESL 101
F AV E + ID+++SL
Sbjct: 200 F-----AVARELQPSIIFIDQVDSL 219
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 37/112 (33%), Positives = 56/112 (50%), Gaps = 17/112 (15%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
VLL+GPPGTGKT L KAVA + FI + + KY ES +++++MF
Sbjct: 218 VLLYGPPGTGKTLLAKAVAATIG---------ANFIFSPASGIVDKYIGESARIIREMF- 267
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGV-RVVNAVLTQID 129
A E + +DE++++ R S GT + R + +LTQ+D
Sbjct: 268 ----AYAKEHEPCIIFMDEVDAIGGRRFS--EGTSADREIQRTLMELLTQMD 313
>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|B Chain B, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|C Chain C, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|D Chain D, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|E Chain E, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|F Chain F, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
Length = 489
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 60/119 (50%), Gaps = 18/119 (15%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKM 76
R +LL+GPPGTGKT + +AVA + F IN + SK ES ++K
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG---------AFFFLINGPEIMSKLAGESESNLRKA 289
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKS 135
F + + + + + IDE++++ RE E R+V+ +LT +D LK+++
Sbjct: 290 FEEAE-----KNAPAIIFIDELDAIAPKREKTHGEVE----RRIVSQLLTLMDGLKQRA 339
>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
pdb|3HU3|B Chain B, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
Length = 489
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 60/119 (50%), Gaps = 18/119 (15%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKM 76
R +LL+GPPGTGKT + +AVA + F IN + SK ES ++K
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG---------AFFFLINGPEIMSKLAGESESNLRKA 289
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKS 135
F + + + + + IDE++++ RE E R+V+ +LT +D LK+++
Sbjct: 290 FEEAE-----KNAPAIIFIDELDAIAPKREKTHGEVE----RRIVSQLLTLMDGLKQRA 339
>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|B Chain B, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|C Chain C, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|D Chain D, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|E Chain E, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|F Chain F, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
Length = 489
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 60/119 (50%), Gaps = 18/119 (15%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKM 76
R +LL+GPPGTGKT + +AVA + F IN + SK ES ++K
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG---------AFFFLINGPEIMSKLAGESESNLRKA 289
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKS 135
F + + + + + IDE++++ RE E R+V+ +LT +D LK+++
Sbjct: 290 FEEAE-----KNAPAIIFIDELDAIAPKREKTHGEVE----RRIVSQLLTLMDGLKQRA 339
>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain
Of Membrane Fusion Atpase P97
pdb|1S3S|A Chain A, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|B Chain B, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|C Chain C, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|D Chain D, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|E Chain E, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|F Chain F, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
Length = 458
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 60/119 (50%), Gaps = 18/119 (15%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKM 76
R +LL+GPPGTGKT + +AVA + F IN + SK ES ++K
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG---------AFFFLINGPEIMSKLAGESESNLRKA 289
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKS 135
F + + + + + IDE++++ RE E R+V+ +LT +D LK+++
Sbjct: 290 FEEAE-----KNAPAIIFIDELDAIAPKREKTHGEVE----RRIVSQLLTLMDGLKQRA 339
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 40/123 (32%), Positives = 59/123 (47%), Gaps = 15/123 (12%)
Query: 13 ISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKL 72
I + V+L+G PGTGKT L KAVA + S F+ I L KY + +L
Sbjct: 213 IKPPKGVILYGAPGTGKTLLAKAVANQTS---------ATFLRIVGSELIQKYLGDGPRL 263
Query: 73 VQKMFNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLK 132
+++F K A E S+V IDEI+++ R SG E + R + +L Q+D
Sbjct: 264 CRQIF---KVAGENAPSIV--FIDEIDAIGTKRYDSNSGGE-REIQRTMLELLNQLDGFD 317
Query: 133 KKS 135
+
Sbjct: 318 DRG 320
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 56/117 (47%), Gaps = 15/117 (12%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL+GPPGTGKT +AVA + FI + L KY E ++V+++F
Sbjct: 246 ILLYGPPGTGKTLCARAVANRTD---------ATFIRVIGSELVQKYVGEGARMVRELFE 296
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKS 135
+ + + DEI+++ AR +G + ++ R + ++TQ+D +
Sbjct: 297 MAR-----TKKACIIFFDEIDAVGGARFDDGAGGD-NEVQRTMLELITQLDGFDPRG 347
>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In
Complex With Adp
pdb|3D8B|B Chain B, Crystal Structure Of Human Fidgetin-Like Protein 1 In
Complex With Adp
Length = 357
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 31/87 (35%), Positives = 44/87 (50%), Gaps = 14/87 (16%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL GPPGTGKT + K +A + F I++ SL SK+ E K+V+ +F
Sbjct: 120 ILLFGPPGTGKTLIGKCIASQSG---------ATFFSISASSLTSKWVGEGEKMVRALF- 169
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRAR 105
AV + + IDEI+SL R
Sbjct: 170 ----AVARCQQPAVIFIDEIDSLLSQR 192
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 52/107 (48%), Gaps = 15/107 (14%)
Query: 6 SKVKSNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKY 65
K K I + L++GPPGTGKT L +A A + + F+++ + L Y
Sbjct: 205 DKFKDMGIRAPKGALMYGPPGTGKTLLARACAAQTN---------ATFLKLAAPQLVQMY 255
Query: 66 FSESGKLVQKMFNKIKEAVEYEESLVCLLIDEIESLTRAR-ESVMSG 111
E KLV+ F A+ E++ + IDE++++ R +S SG
Sbjct: 256 IGEGAKLVRDAF-----ALAKEKAPTIIFIDELDAIGTKRFDSEKSG 297
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 42/81 (51%), Gaps = 14/81 (17%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL GPPG GKT L +AVA + S F+ I++ SL SKY + KLV+ +F
Sbjct: 57 LLLFGPPGNGKTLLARAVATECS---------ATFLNISAASLTSKYVGDGEKLVRALF- 106
Query: 79 KIKEAVEYEESLVCLLIDEIE 99
AV + IDE++
Sbjct: 107 ----AVARHMQPSIIFIDEVD 123
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 45/94 (47%), Gaps = 16/94 (17%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
VL+ GPPGTGKT L KA+A + + F I+ + V+ MF
Sbjct: 48 VLMVGPPGTGKTLLAKAIAGEAKV---------PFFTISGSDFVEMFVGVGASRVRDMFE 98
Query: 79 KIKEAVEYEESLVCLL-IDEIESLTRARESVMSG 111
+ K+A C++ IDEI+++ R R + + G
Sbjct: 99 QAKKAAP------CIIFIDEIDAVGRQRGAGLGG 126
>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R62|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R65|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|C Chain C, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|D Chain D, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|E Chain E, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
Length = 268
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 55/113 (48%), Gaps = 18/113 (15%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
VLL GPPGTGKT L KAVA + + F + S + V+ +F
Sbjct: 47 VLLVGPPGTGKTLLAKAVAGEAHV---------PFFSMGGSSFIEMFVGLGASRVRDLFE 97
Query: 79 KIKEAVEYEESLVCLLIDEIESL--TRARESVMSGTEPSDGVRVVNAVLTQID 129
K +++ + IDEI+++ +RA V+SG + + + +N +L ++D
Sbjct: 98 TAK-----KQAPSIIFIDEIDAIGKSRAAGGVVSGNDERE--QTLNQLLAEMD 143
>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 508
Score = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 52/118 (44%), Gaps = 15/118 (12%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
VLL GPPG GKT L +AVA + + FI + + V+ +F
Sbjct: 76 VLLVGPPGVGKTHLARAVAGEARV---------PFITASGSDFVEMFVGVGAARVRDLFE 126
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKST 136
K + + IDEI+++ R R S + G + + +N +L ++D +K +
Sbjct: 127 TAK-----RHAPCIVFIDEIDAVGRKRGSGVGGGN-DEREQTLNQLLVEMDGFEKDTA 178
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 52/118 (44%), Gaps = 15/118 (12%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
VLL GPPG GKT L +AVA + + FI + + V+ +F
Sbjct: 76 VLLVGPPGVGKTHLARAVAGEARV---------PFITASGSDFVEMFVGVGAARVRDLFE 126
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKST 136
K + + IDEI+++ R R S + G + + +N +L ++D +K +
Sbjct: 127 TAK-----RHAPCIVFIDEIDAVGRKRGSGVGGGN-DEREQTLNQLLVEMDGFEKDTA 178
>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 499
Score = 43.9 bits (102), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 52/118 (44%), Gaps = 15/118 (12%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
VLL GPPG GKT L +AVA + + FI + + V+ +F
Sbjct: 67 VLLVGPPGVGKTHLARAVAGEARV---------PFITASGSDFVEMFVGVGAARVRDLFE 117
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKST 136
K + + IDEI+++ R R S + G + + +N +L ++D +K +
Sbjct: 118 TAK-----RHAPCIVFIDEIDAVGRKRGSGVGGGN-DEREQTLNQLLVEMDGFEKDTA 169
>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
pdb|1IY0|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Amp-Pnp
From Thermus Thermophilus
pdb|1IY1|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Adp From
Thermus Thermophilus
Length = 254
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 52/118 (44%), Gaps = 15/118 (12%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
VLL GPPG GKT L +AVA + + FI + + V+ +F
Sbjct: 52 VLLVGPPGVGKTHLARAVAGEARV---------PFITASGSDFVEMFVGVGAARVRDLFE 102
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKST 136
K + + IDEI+++ R R S + G + + +N +L ++D +K +
Sbjct: 103 TAK-----RHAPCIVFIDEIDAVGRKRGSGVGGGN-DEREQTLNQLLVEMDGFEKDTA 154
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 55/113 (48%), Gaps = 14/113 (12%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
LL GPPG GKT L KAVA + + + EF+E+ G ++ +
Sbjct: 42 ALLLGPPGCGKTLLAKAVATEAQVPFLAMAG-AEFVEVI-----------GGLGAARVRS 89
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQL 131
KEA +V IDEI+++ + R + MSG ++ + +N +L ++D +
Sbjct: 90 LFKEARARAPCIV--YIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGM 140
>pdb|2CE7|A Chain A, Edta Treated
pdb|2CE7|B Chain B, Edta Treated
pdb|2CE7|C Chain C, Edta Treated
pdb|2CE7|D Chain D, Edta Treated
pdb|2CE7|E Chain E, Edta Treated
pdb|2CE7|F Chain F, Edta Treated
pdb|2CEA|A Chain A, Cell Division Protein Ftsh
pdb|2CEA|B Chain B, Cell Division Protein Ftsh
pdb|2CEA|C Chain C, Cell Division Protein Ftsh
pdb|2CEA|D Chain D, Cell Division Protein Ftsh
pdb|2CEA|E Chain E, Cell Division Protein Ftsh
pdb|2CEA|F Chain F, Cell Division Protein Ftsh
Length = 476
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 53/116 (45%), Gaps = 15/116 (12%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL GPPGTGKT L +AVA + ++ F I+ + V+ +F
Sbjct: 52 ILLVGPPGTGKTLLARAVAGEANV---------PFFHISGSDFVELFVGVGAARVRDLFA 102
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKK 134
+ K + + IDEI+++ R R + + G + + +N +L ++D K
Sbjct: 103 QAK-----AHAPCIVFIDEIDAVGRHRGAGLGGGH-DEREQTLNQLLVEMDGFDSK 152
>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
Length = 456
Score = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 17/26 (65%), Positives = 20/26 (76%)
Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLS 41
R VLL GPPGTGKT+L A+AQ+L
Sbjct: 63 GRAVLLAGPPGTGKTALALAIAQELG 88
>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|B Chain B, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|C Chain C, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 367
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 17/26 (65%), Positives = 20/26 (76%)
Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLS 41
R VLL GPPGTGKT+L A+AQ+L
Sbjct: 77 GRAVLLAGPPGTGKTALALAIAQELG 102
>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure
pdb|3KDS|F Chain F, Apo-ftsh Crystal Structure
pdb|3KDS|G Chain G, Apo-ftsh Crystal Structure
Length = 465
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/116 (25%), Positives = 52/116 (44%), Gaps = 15/116 (12%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL GPPGTG T L +AVA + ++ F I+ + V+ +F
Sbjct: 52 ILLVGPPGTGATLLARAVAGEANV---------PFFHISGSDFVELFVGVGAARVRDLFA 102
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKK 134
+ K + + IDEI+++ R R + + G + + +N +L ++D K
Sbjct: 103 QAK-----AHAPCIVFIDEIDAVGRHRGAGLGGGH-DEREQTLNQLLVEMDGFDSK 152
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 19/86 (22%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLS---IRLQSKYKITEFIEINSHSLFSKYFSESGKLVQK 75
VLL GPP +GKT+L +A++ + I++ S K+ F E K F ++
Sbjct: 67 VLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDA------ 120
Query: 76 MFNKIKEAVEYEESLVCLLIDEIESL 101
Y+ L C+++D+IE L
Sbjct: 121 ----------YKSQLSCVVVDDIERL 136
>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
Factor (Nsf)
Length = 273
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 19/86 (22%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLS---IRLQSKYKITEFIEINSHSLFSKYFSESGKLVQK 75
VLL GPP +GKT+L +A++ + I++ S K+ F E K F ++
Sbjct: 66 VLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDA------ 119
Query: 76 MFNKIKEAVEYEESLVCLLIDEIESL 101
Y+ L C+++D+IE L
Sbjct: 120 ----------YKSQLSCVVVDDIERL 135
>pdb|3UK6|A Chain A, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|B Chain B, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|C Chain C, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|D Chain D, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|E Chain E, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|F Chain F, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|G Chain G, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|H Chain H, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|I Chain I, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|J Chain J, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|K Chain K, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|L Chain L, Crystal Structure Of The Tip48 (Tip49b) Hexamer
Length = 368
Score = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 29/65 (44%), Gaps = 7/65 (10%)
Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQK 75
R VL+ G PGTGKT++ +AQ L T F I +FS S++ L Q
Sbjct: 70 GRAVLIAGQPGTGKTAIAMGMAQALG-------PDTPFTAIAGSEIFSLEMSKTEALTQA 122
Query: 76 MFNKI 80
I
Sbjct: 123 FRRSI 127
>pdb|3VAA|A Chain A, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
pdb|3VAA|B Chain B, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
pdb|3VAA|C Chain C, 1.7 Angstrom Resolution Crystal Structure Of Shikimate
Kinase From Bacteroides Thetaiotaomicron
Length = 199
Score = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 37/152 (24%), Positives = 62/152 (40%), Gaps = 16/152 (10%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMF- 77
+ L G G GKT+L KA A+KL++ + +IE H + F+E G+ +
Sbjct: 28 IFLTGYMGAGKTTLGKAFARKLNVPF---IDLDWYIEERFHKTVGELFTERGEAGFRELE 84
Query: 78 -NKIKEAVEYEESLVCL------LIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQ 130
N + E E+E ++ D +E + R ++V P R + Q
Sbjct: 85 RNMLHEVAEFENVVISTGGGAPCFYDNMEFMNRTGKTVFLNVHPDVLFRRLRIAKQQRPI 144
Query: 131 LKKKSTG-----LSGRTLRKIPFLTFVKYISN 157
L+ K + ++ PF T +YI N
Sbjct: 145 LQGKEDDELMDFIIQALEKRAPFYTQAQYIFN 176
>pdb|1HQC|A Chain A, Structure Of Ruvb From Thermus Thermophilus Hb8
pdb|1HQC|B Chain B, Structure Of Ruvb From Thermus Thermophilus Hb8
Length = 324
Score = 36.2 bits (82), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 38/89 (42%), Gaps = 21/89 (23%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL GPPG GKT+L +A +L + L+ + S K G L + N
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNLR----------VTSGPAIEK----PGDLAAILAN 86
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARES 107
++E L IDEI L+R E
Sbjct: 87 SLEEG-------DILFIDEIHRLSRQAEE 108
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 38/89 (42%), Gaps = 21/89 (23%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL GPPG GKT+L +A +L + L+ + S K G L + N
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNLR----------VTSGPAIEK----PGDLAAILAN 86
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARES 107
++E L IDEI L+R E
Sbjct: 87 SLEEG-------DILFIDEIHRLSRQAEE 108
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 35.8 bits (81), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 38/89 (42%), Gaps = 21/89 (23%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+LL GPPG GKT+L +A +L + L+ + S K G L + N
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNLR----------VTSGPAIEK----PGDLAAILAN 86
Query: 79 KIKEAVEYEESLVCLLIDEIESLTRARES 107
++E L IDEI L+R E
Sbjct: 87 SLEEG-------DILFIDEIHRLSRQAEE 108
>pdb|1SXJ|A Chain A, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 516
Score = 35.8 bits (81), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 41/93 (44%), Gaps = 16/93 (17%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESG------ 70
R +L+GPPG GKT+ VAQ+L + +E N+ + SK +G
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQELGY---------DILEQNASDVRSKTLLNAGVKNALD 128
Query: 71 -KLVQKMFNKIKEAVEYEESLVCLLIDEIESLT 102
V F +EA +++DE++ ++
Sbjct: 129 NMSVVGYFKHNEEAQNLNGKHFVIIMDEVDGMS 161
>pdb|2XSZ|D Chain D, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|E Chain E, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|F Chain F, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 378
Score = 35.4 bits (80), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 28/65 (43%), Gaps = 7/65 (10%)
Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQK 75
R VL+ G PGTGKT++ AQ L T F I +FS S++ L Q
Sbjct: 85 GRAVLIAGQPGTGKTAIAXGXAQALG-------PDTPFTAIAGSEIFSLEXSKTEALTQA 137
Query: 76 MFNKI 80
I
Sbjct: 138 FRRSI 142
>pdb|4E22|A Chain A, Structure Of Cytidine Monophosphate Kinase From Yersinia
Pseudotuberculosis
Length = 252
Score = 34.7 bits (78), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 20/27 (74%)
Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIRL 44
V+ + GP G GK +LCKA+A+ L+ RL
Sbjct: 29 VITVDGPSGAGKGTLCKALAESLNWRL 55
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 18/24 (75%)
Query: 18 VVLLHGPPGTGKTSLCKAVAQKLS 41
++ L GPPG GKTSL K++A+ L
Sbjct: 110 ILCLAGPPGVGKTSLAKSIAKSLG 133
>pdb|3R20|A Chain A, Crystal Structure Of Cytidylate Kinase From
Mycobacterium Smegmatis
Length = 233
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 23/34 (67%)
Query: 10 SNIISWNRVVLLHGPPGTGKTSLCKAVAQKLSIR 43
+++S + VV + GP GTGK+S+ + +A+ L R
Sbjct: 3 GSMVSGSLVVAVDGPAGTGKSSVSRGLARALGAR 36
>pdb|2QBY|A Chain A, Crystal Structure Of A Heterodimer Of Cdc6ORC1 INITIATORS
Bound To Origin Dna (From S. Solfataricus)
Length = 386
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 49/98 (50%), Gaps = 16/98 (16%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKY-----FSES---- 69
+ ++G GTGKT++ K V KL + K+K + IN+ + + Y ES
Sbjct: 48 IFIYGLTGTGKTAVVKFVLSKLHKKFLGKFK---HVYINTRQIDTPYRVLADLLESLDVK 104
Query: 70 ----GKLVQKMFNKIKEAVEYEESLVCLLIDEIESLTR 103
G + +++ ++ +AV S V +++DEI++ +
Sbjct: 105 VPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVK 142
>pdb|2FEM|A Chain A, Mutant R188m Of The Cytidine Monophosphate Kinase From
E. Coli
pdb|2FEO|A Chain A, Mutant R188m Of The Cytidine Monophosphate Kinase From
E. Coli Complexed With Dcmp
Length = 227
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIRL---QSKYKITEFIEINSH 59
V+ + GP G GK +LCKA+A+ L L + Y++ ++ H
Sbjct: 7 VITIDGPSGAGKGTLCKAMAEALQWHLLDSGAIYRVLALAALHHH 51
>pdb|1CKE|A Chain A, Cmp Kinase From Escherichia Coli Free Enzyme Structure
Length = 227
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIRL---QSKYKITEFIEINSH 59
V+ + GP G GK +LCKA+A+ L L + Y++ ++ H
Sbjct: 7 VITIDGPSGAGKGTLCKAMAEALQWHLLDSGAIYRVLALAALHHH 51
>pdb|2CMK|A Chain A, Cytidine Monophosphate Kinase In Complex With
Cytidine-Di- Phosphate
pdb|1KDO|A Chain A, Cytidine Monophosphate Kinase From E. Coli In Complex
With Cytidine Monophosphate
pdb|1KDO|B Chain B, Cytidine Monophosphate Kinase From E. Coli In Complex
With Cytidine Monophosphate
pdb|1KDP|A Chain A, Cytidine Monophosphate Kinase From E. Coli In Complex
With 2'-Deoxy-Cytidine Monophosphate
pdb|1KDP|B Chain B, Cytidine Monophosphate Kinase From E. Coli In Complex
With 2'-Deoxy-Cytidine Monophosphate
pdb|1KDR|A Chain A, Cytidine Monophosphate Kinase From E.Coli In Complex
With Ara-Cytidine Monophosphate
pdb|1KDR|B Chain B, Cytidine Monophosphate Kinase From E.Coli In Complex
With Ara-Cytidine Monophosphate
pdb|1KDT|A Chain A, Cytidine Monophosphate Kinase From E.Coli In Complex
With 2',3'-Dideoxy-Cytidine Monophosphate
pdb|1KDT|B Chain B, Cytidine Monophosphate Kinase From E.Coli In Complex
With 2',3'-Dideoxy-Cytidine Monophosphate
Length = 227
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 25/45 (55%), Gaps = 3/45 (6%)
Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIRL---QSKYKITEFIEINSH 59
V+ + GP G GK +LCKA+A+ L L + Y++ ++ H
Sbjct: 7 VITIDGPSGAGKGTLCKAMAEALQWHLLDSGAIYRVLALAALHHH 51
>pdb|2V1U|A Chain A, Structure Of The Aeropyrum Pernix Orc1 Protein In Complex
With Dna
Length = 387
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 51/118 (43%), Gaps = 17/118 (14%)
Query: 20 LLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFNK 79
LL+G GTGKT++ + V ++L R S + + I +N+ + Y ++ +
Sbjct: 48 LLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPY---------RVASA 98
Query: 80 IKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKSTG 137
I EAV L + E+ R S + G + VL +ID L K+ G
Sbjct: 99 IAEAVGVRVPFTGLSVGEVYERLVKRLSRLRG--------IYIIVLDEIDFLPKRPGG 148
>pdb|2AR7|A Chain A, Crystal Structure Of Human Adenylate Kinase 4, Ak4
pdb|2AR7|B Chain B, Crystal Structure Of Human Adenylate Kinase 4, Ak4
pdb|2BBW|A Chain A, Crystal Structure Of Human Adenylate Kinase 4 (Ak4) In
Complex With Diguanosine Pentaphosphate
pdb|2BBW|B Chain B, Crystal Structure Of Human Adenylate Kinase 4 (Ak4) In
Complex With Diguanosine Pentaphosphate
Length = 246
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 20/27 (74%), Gaps = 1/27 (3%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIR 43
R V+L GPPG+GK ++C+ +AQ ++
Sbjct: 29 RAVIL-GPPGSGKGTVCQRIAQNFGLQ 54
>pdb|1P4S|A Chain A, Solution Structure Of Mycobacterium Tuberculosis
Adenylate Kinase
Length = 181
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 11/54 (20%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKL 72
VLL GPPG GK + +A+KL I +I++ LF + E KL
Sbjct: 3 VLLLGPPGAGKGTQAVKLAEKLGI-----------PQISTGELFRRNIEEGTKL 45
>pdb|3NDP|A Chain A, Crystal Structure Of Human Ak4(L171p)
pdb|3NDP|B Chain B, Crystal Structure Of Human Ak4(L171p)
Length = 231
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 20/27 (74%), Gaps = 1/27 (3%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIR 43
R V+L GPPG+GK ++C+ +AQ ++
Sbjct: 7 RAVIL-GPPGSGKGTVCQRIAQNFGLQ 32
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
pdb|4B3G|B Chain B, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
Length = 646
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 5/35 (14%)
Query: 13 ISWNRVVLLHGPPGTGKTS-----LCKAVAQKLSI 42
+S + ++HGPPGTGKT+ + +AV Q L +
Sbjct: 202 LSQKELAIIHGPPGTGKTTTVVEIILQAVKQGLKV 236
>pdb|3C8U|A Chain A, Crystal Structure Of Putative Fructose Transport System
Kinase (Yp_612366.1) From Silicibacter Sp. Tm1040 At
1.95 A Resolution
Length = 208
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 25/105 (23%), Positives = 49/105 (46%), Gaps = 19/105 (18%)
Query: 17 RVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQK- 75
++V L G PG+GK++L +A LS ++ E + + L ++ G L +K
Sbjct: 23 QLVALSGAPGSGKSTLSNPLAAALS----AQGLPAEVVPXDGFHLDNRLLEPRGLLPRKG 78
Query: 76 --------MFNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGT 112
F ++ A++++E ++ L D RAR+ ++G
Sbjct: 79 APETFDFEGFQRLCHALKHQERVIYPLFD------RARDIAIAGA 117
>pdb|2CDN|A Chain A, Crystal Structure Of Mycobacterium Tuberculosis
Adenylate Kinase Complexed With Two Molecules Of Adp
And Mg
Length = 201
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 26/54 (48%), Gaps = 11/54 (20%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKL 72
VLL GPPG GK + +A+KL I +I++ LF + E KL
Sbjct: 23 VLLLGPPGAGKGTQAVKLAEKLGI-----------PQISTGELFRRNIEEGTKL 65
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%), Gaps = 5/35 (14%)
Query: 13 ISWNRVVLLHGPPGTGKTS-----LCKAVAQKLSI 42
+S + ++HGPPGTGKT+ + +AV Q L +
Sbjct: 202 LSQKELAIIHGPPGTGKTTTVVEIILQAVKQGLKV 236
>pdb|1IN8|A Chain A, Thermotoga Maritima Ruvb T158v
Length = 334
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKL 40
VLL GPPG GKT+L +A +L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN5|A Chain A, Thermogota Maritima Ruvb A156s Mutant
Length = 334
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKL 40
VLL GPPG GKT+L +A +L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKL 40
VLL GPPG GKT+L +A +L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKL 40
VLL GPPG GKT+L +A +L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1J7K|A Chain A, Thermotoga Maritima Ruvb P216g Mutant
Length = 334
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKL 40
VLL GPPG GKT+L +A +L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASEL 75
>pdb|1SXJ|C Chain C, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 340
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 48/95 (50%), Gaps = 17/95 (17%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+L +GPPGTGKTS A+A+++ + S +E+N+ + + + N
Sbjct: 49 LLFYGPPGTGKTSTIVALAREIYGKNYSNM----VLELNAS---------DDRGIDVVRN 95
Query: 79 KIKEAVE----YEESLVCLLIDEIESLTRARESVM 109
+IK+ + + +++DE +++T A ++ +
Sbjct: 96 QIKDFASTRQIFSKGFKLIILDEADAMTNAAQNAL 130
>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|B Chain B, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|C Chain C, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|D Chain D, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
Length = 447
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 17/20 (85%)
Query: 19 VLLHGPPGTGKTSLCKAVAQ 38
++L GPPGTGKT+L + +A+
Sbjct: 53 MILWGPPGTGKTTLAEVIAR 72
>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHQ|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHQ|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHV|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHV|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|D Chain D, Replication Factor C Adpnp Complex
pdb|2CHV|E Chain E, Replication Factor C Adpnp Complex
pdb|2CHV|F Chain F, Replication Factor C Adpnp Complex
Length = 319
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 4/40 (10%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINS 58
+L GPPGTGKT+ A+A+ L ++ FIE+N+
Sbjct: 41 LLFSGPPGTGKTATAIALARDL---FGENWR-DNFIEMNA 76
>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2
pdb|2CHG|B Chain B, Replication Factor C Domains 1 And 2
pdb|2CHG|C Chain C, Replication Factor C Domains 1 And 2
pdb|2CHG|D Chain D, Replication Factor C Domains 1 And 2
Length = 226
Score = 31.2 bits (69), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 4/40 (10%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINS 58
+L GPPGTGKT+ A+A+ L ++ FIE+N+
Sbjct: 41 LLFSGPPGTGKTATAIALARDL---FGENWR-DNFIEMNA 76
>pdb|1IN6|A Chain A, Thermotoga Maritima Ruvb K64r Mutant
Length = 334
Score = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKL 40
VLL GPPG G+T+L +A +L
Sbjct: 54 VLLAGPPGLGRTTLAHIIASEL 75
>pdb|1JBK|A Chain A, Crystal Structure Of The First Nucelotide Binding Domain
Of Clpb
Length = 195
Score = 30.8 bits (68), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 20 LLHGPPGTGKTSLCKAVAQK-LSIRLQSKYKITEFIEINSHSLF--SKYFSESGKLVQKM 76
+L G PG GKT++ + +AQ+ ++ + K + ++ +L +KY E + ++ +
Sbjct: 47 VLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGV 106
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTRA 104
N + + +E V L IDE+ ++ A
Sbjct: 107 LNDLAK----QEGNVILFIDELHTMVGA 130
>pdb|1Y63|A Chain A, Initial Crystal Structural Analysis Of A Probable Kinase
From Leishmania Major Friedlin
Length = 184
Score = 30.8 bits (68), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLS 41
+L+ G PGTGKTS+ + +A +L
Sbjct: 13 ILITGTPGTGKTSMAEMIAAELD 35
>pdb|1SXJ|D Chain D, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 353
Score = 30.8 bits (68), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 17/22 (77%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKL 40
+L +GPPGTGKTS A+ ++L
Sbjct: 61 MLFYGPPGTGKTSTILALTKEL 82
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 30.4 bits (67), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 19/26 (73%)
Query: 5 HSKVKSNIISWNRVVLLHGPPGTGKT 30
H K+ ++++ R ++L GPPG+GKT
Sbjct: 1037 HEKIFYDLLNSKRGIILCGPPGSGKT 1062
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 30.4 bits (67), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 19/26 (73%)
Query: 5 HSKVKSNIISWNRVVLLHGPPGTGKT 30
H K+ ++++ R ++L GPPG+GKT
Sbjct: 1256 HEKIFYDLLNSKRGIILCGPPGSGKT 1281
>pdb|3E1S|A Chain A, Structure Of An N-Terminal Truncation Of Deinococcus
Radiodurans Recd2
pdb|3GP8|A Chain A, Crystal Structure Of The Binary Complex Of Recd2 With Dna
pdb|3GPL|A Chain A, Crystal Structure Of The Ternary Complex Of Recd2 With Dna
And Adpnp
pdb|3GPL|B Chain B, Crystal Structure Of The Ternary Complex Of Recd2 With Dna
And Adpnp
Length = 574
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/25 (52%), Positives = 20/25 (80%)
Query: 13 ISWNRVVLLHGPPGTGKTSLCKAVA 37
++ +R+V+L G PGTGK++ KAVA
Sbjct: 201 LAGHRLVVLTGGPGTGKSTTTKAVA 225
>pdb|1PVO|A Chain A, X-Ray Crystal Structure Of Rho Transcription Termination
Factor In Complex With Ssrna Substrate And Anppnp
pdb|1PVO|B Chain B, X-Ray Crystal Structure Of Rho Transcription Termination
Factor In Complex With Ssrna Substrate And Anppnp
pdb|1PVO|C Chain C, X-Ray Crystal Structure Of Rho Transcription Termination
Factor In Complex With Ssrna Substrate And Anppnp
pdb|1PVO|D Chain D, X-Ray Crystal Structure Of Rho Transcription Termination
Factor In Complex With Ssrna Substrate And Anppnp
pdb|1PVO|E Chain E, X-Ray Crystal Structure Of Rho Transcription Termination
Factor In Complex With Ssrna Substrate And Anppnp
pdb|1PVO|F Chain F, X-Ray Crystal Structure Of Rho Transcription Termination
Factor In Complex With Ssrna Substrate And Anppnp
pdb|1XPR|A Chain A, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-formylbicyclomycin (fb)
pdb|1XPR|B Chain B, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-formylbicyclomycin (fb)
pdb|1XPR|C Chain C, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-formylbicyclomycin (fb)
pdb|1XPR|D Chain D, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-formylbicyclomycin (fb)
pdb|1XPR|E Chain E, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-formylbicyclomycin (fb)
pdb|1XPR|F Chain F, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-formylbicyclomycin (fb)
pdb|1XPU|A Chain A, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-(3-Formylphenylsulfanyl)- Dihydrobicyclomycin (Fpdb)
pdb|1XPU|B Chain B, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-(3-Formylphenylsulfanyl)- Dihydrobicyclomycin (Fpdb)
pdb|1XPU|C Chain C, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-(3-Formylphenylsulfanyl)- Dihydrobicyclomycin (Fpdb)
pdb|1XPU|D Chain D, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-(3-Formylphenylsulfanyl)- Dihydrobicyclomycin (Fpdb)
pdb|1XPU|E Chain E, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-(3-Formylphenylsulfanyl)- Dihydrobicyclomycin (Fpdb)
pdb|1XPU|F Chain F, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
5a-(3-Formylphenylsulfanyl)- Dihydrobicyclomycin (Fpdb)
pdb|1XPO|A Chain A, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
Bicyclomycin
pdb|1XPO|B Chain B, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
Bicyclomycin
pdb|1XPO|C Chain C, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
Bicyclomycin
pdb|1XPO|D Chain D, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
Bicyclomycin
pdb|1XPO|E Chain E, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
Bicyclomycin
pdb|1XPO|F Chain F, Structural Mechanism Of Inhibition Of The Rho
Transcription Termination Factor By The Antibiotic
Bicyclomycin
Length = 419
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 29/116 (25%), Positives = 53/116 (45%), Gaps = 18/116 (15%)
Query: 20 LLHGPPGTGKTSLCKAVAQKLS-----------IRLQSKYKITEFIEINSHSLFSKYFSE 68
L+ PP GKT L + +AQ ++ + + ++TE + + + F E
Sbjct: 175 LIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVKGEVVASTFDE 234
Query: 69 SG----KLVQKMFNKIKEAVEYEESLVCLLIDEIESLTRARESVM--SGTEPSDGV 118
++ + + K K VE+++ ++ LL D I L RA +V+ SG + GV
Sbjct: 235 PASRHVQVAEMVIEKAKRLVEHKKDVIILL-DSITRLARAYNTVVPASGKVLTGGV 289
>pdb|1PV4|A Chain A, X-Ray Crystal Structure Of The Rho Transcription
Termination Factor In Complex With Single Stranded Dna
pdb|1PV4|B Chain B, X-Ray Crystal Structure Of The Rho Transcription
Termination Factor In Complex With Single Stranded Dna
pdb|1PV4|C Chain C, X-Ray Crystal Structure Of The Rho Transcription
Termination Factor In Complex With Single Stranded Dna
pdb|1PV4|D Chain D, X-Ray Crystal Structure Of The Rho Transcription
Termination Factor In Complex With Single Stranded Dna
pdb|1PV4|E Chain E, X-Ray Crystal Structure Of The Rho Transcription
Termination Factor In Complex With Single Stranded Dna
pdb|1PV4|F Chain F, X-Ray Crystal Structure Of The Rho Transcription
Termination Factor In Complex With Single Stranded Dna
Length = 419
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 49/108 (45%), Gaps = 16/108 (14%)
Query: 20 LLHGPPGTGKTSLCKAVAQKLS-----------IRLQSKYKITEFIEINSHSLFSKYFSE 68
L+ PP GKT L + +AQ ++ + + ++TE + + + F E
Sbjct: 175 LIVAPPKAGKTXLLQNIAQSIAYNHPDCVLXVLLIDERPEEVTEXQRLVKGEVVASTFDE 234
Query: 69 SG----KLVQKMFNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGT 112
++ + + K K VE+++ ++ LL D I L RA +V+ +
Sbjct: 235 PASRHVQVAEXVIEKAKRLVEHKKDVIILL-DSITRLARAYNTVVPAS 281
>pdb|2P65|A Chain A, Crystal Structure Of The First Nucleotide Binding Domain
Of Chaperone Clpb1, Putative, (Pv089580) From Plasmodium
Vivax
Length = 187
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 20 LLHGPPGTGKTSLCKAVAQKL-SIRLQSKYKITEFIEINSHSLF--SKYFSESGKLVQKM 76
+L G PG GKT++ + +A K+ + K + + ++ SL +KY + + ++ +
Sbjct: 47 ILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYRGDFEERLKSI 106
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTRA 104
++++A E V + IDEI ++ A
Sbjct: 107 LKEVQDA----EGQVVMFIDEIHTVVGA 130
>pdb|3PXI|A Chain A, Structure Of Meca108:clpc
pdb|3PXI|B Chain B, Structure Of Meca108:clpc
pdb|3PXI|C Chain C, Structure Of Meca108:clpc
Length = 758
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 6/57 (10%)
Query: 23 GPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFNK 79
GP G GKT L +A+A+ + +S I I+ K+ + G+L +K+ K
Sbjct: 528 GPTGVGKTELARALAESIFGDEES------MIRIDMSEYMEKHSTSGGQLTEKVRRK 578
>pdb|2HT1|A Chain A, The Closed Ring Structure Of The Rho Transcription
Termination Factor In Complex With Nucleic Acid In The
Motor Domains
pdb|2HT1|B Chain B, The Closed Ring Structure Of The Rho Transcription
Termination Factor In Complex With Nucleic Acid In The
Motor Domains
Length = 433
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/116 (25%), Positives = 53/116 (45%), Gaps = 18/116 (15%)
Query: 20 LLHGPPGTGKTSLCKAVAQKLS-----------IRLQSKYKITEFIEINSHSLFSKYFSE 68
L+ PP GKT L + +AQ ++ + + ++TE + + + F E
Sbjct: 197 LIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEEVTEMQRLVKGEVVASTFDE 256
Query: 69 SG----KLVQKMFNKIKEAVEYEESLVCLLIDEIESLTRARESVM--SGTEPSDGV 118
++ + + K K VE+++ ++ LL D I L RA +V+ SG + GV
Sbjct: 257 PASRHVQVAEMVIEKAKRLVEHKKDVIILL-DSITRLARAYNTVVPASGKVLTGGV 311
>pdb|3ICE|A Chain A, Rho Transcription Termination Factor Bound To Rna And
Adp-Bef3
pdb|3ICE|B Chain B, Rho Transcription Termination Factor Bound To Rna And
Adp-Bef3
pdb|3ICE|C Chain C, Rho Transcription Termination Factor Bound To Rna And
Adp-Bef3
pdb|3ICE|D Chain D, Rho Transcription Termination Factor Bound To Rna And
Adp-Bef3
pdb|3ICE|E Chain E, Rho Transcription Termination Factor Bound To Rna And
Adp-Bef3
pdb|3ICE|F Chain F, Rho Transcription Termination Factor Bound To Rna And
Adp-Bef3
Length = 422
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 49/108 (45%), Gaps = 16/108 (14%)
Query: 20 LLHGPPGTGKTSLCKAVAQKLS-----------IRLQSKYKITEFIEINSHSLFSKYFSE 68
L+ PP GKT L + +AQ ++ + + ++TE + + + F E
Sbjct: 178 LIVAPPKAGKTXLLQNIAQSIAYNHPDCVLXVLLIDERPEEVTEXQRLVKGEVVASTFDE 237
Query: 69 SG----KLVQKMFNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGT 112
++ + + K K VE+++ ++ LL D I L RA +V+ +
Sbjct: 238 PASRHVQVAEXVIEKAKRLVEHKKDVIILL-DSITRLARAYNTVVPAS 284
>pdb|3R8C|A Chain A, Crystal Structure Of Cytidylate Kinase (Cmk) From
Mycobacterium Abscessus
pdb|3R8C|B Chain B, Crystal Structure Of Cytidylate Kinase (Cmk) From
Mycobacterium Abscessus
pdb|4DIE|A Chain A, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
pdb|4DIE|B Chain B, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
pdb|4DIE|C Chain C, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
pdb|4DIE|D Chain D, Crystal Structure Of A Cytidylate Kinase Cmk From
Mycobacterium Abscessus Bound To
Cytidine-5'-Monophosphate
Length = 228
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 18/24 (75%)
Query: 18 VVLLHGPPGTGKTSLCKAVAQKLS 41
VV + GP GTGK+S+ K +A++L
Sbjct: 6 VVAVDGPSGTGKSSVAKELARQLG 29
>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|B Chain B, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|C Chain C, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|D Chain D, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|E Chain E, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|F Chain F, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
Length = 327
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 36/150 (24%), Positives = 65/150 (43%), Gaps = 22/150 (14%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFN 78
+L GPPG GKT+ A+A++L ++ F+E+N+ E G + +
Sbjct: 49 LLFAGPPGVGKTTAALALAREL---FGENWR-HNFLELNAS-------DERG--INVIRE 95
Query: 79 KIKEAVEYE----ESLVCLLIDEIESLTRARESVMSGTEP--SDGVRVV---NAVLTQID 129
K+KE + S + +DE ++LT+ + + T S VR + N I+
Sbjct: 96 KVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIE 155
Query: 130 QLKKKSTGLSGRTLRKIPFLTFVKYISNNS 159
++ + R LR ++YI+ N
Sbjct: 156 PIQSRCAIFRFRPLRDEDIAKRLRYIAENE 185
>pdb|1SXJ|E Chain E, Crystal Structure Of The Eukaryotic Clamp Loader
(Replication Factor C, Rfc) Bound To The Dna Sliding
Clamp (Proliferating Cell Nuclear Antigen, Pcna)
Length = 354
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 59/121 (48%), Gaps = 29/121 (23%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKL----SIRLQSKYKITEFIEINSHSL-----FSKYF--- 66
+LL+GP GTGK + C A+ + + RL K + +F+ ++ L S Y
Sbjct: 39 LLLYGPNGTGKKTRCMALLESIFGPGVYRL--KIDVRQFVTASNRKLELNVVSSPYHLEI 96
Query: 67 --SESGK----LVQKMFNKIK--EAVEYEES-------LVCLLIDEIESLTRARESVMSG 111
S+ G ++Q++ ++ E V++++S C++I+E SLT+ ++ +
Sbjct: 97 TPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKDGLAHRYKCVIINEANSLTKDAQAALRR 156
Query: 112 T 112
T
Sbjct: 157 T 157
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 44/93 (47%), Gaps = 16/93 (17%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLS--IRLQSKYKITE--FIEINSHSLFSKYFSESGKLVQ 74
+LL GP G+GKT + + +A+ L I + +TE ++ + ++ ++ S VQ
Sbjct: 75 ILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQASDWNVQ 134
Query: 75 KMFNKIKEAVEYEESLVCLLIDEIESLTRARES 107
K I + IDEI+ ++R E+
Sbjct: 135 KAQKGI------------VFIDEIDKISRLSEN 155
>pdb|1OFH|A Chain A, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|B Chain B, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|C Chain C, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFI|A Chain A, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|B Chain B, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|C Chain C, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
Length = 310
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 43/89 (48%), Gaps = 9/89 (10%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFS-ESGKLVQKMF 77
+L+ GP G GKT + + +A KL+ K + T+F E+ Y E +++ +
Sbjct: 53 ILMIGPTGVGKTEIARRLA-KLANAPFIKVEATKFTEVG-------YVGKEVDSIIRDLT 104
Query: 78 NKIKEAVEYEESLVCLLIDEIESLTRARE 106
+ A++ E + IDEI+ + + E
Sbjct: 105 DSAGGAIDAVEQNGIVFIDEIDKICKKGE 133
>pdb|1YE8|A Chain A, Crystal Structure Of Thep1 From The Hyperthermophile
Aquifex Aeolicus
Length = 178
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIR 43
+++ G PG GKT+L K + ++L R
Sbjct: 3 IIITGEPGVGKTTLVKKIVERLGKR 27
>pdb|1RKB|A Chain A, The Structure Of Adrenal Gland Protein Ad-004
Length = 173
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIR 43
+LL G PG GKT+L K +A K ++
Sbjct: 7 ILLTGTPGVGKTTLGKELASKSGLK 31
>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
Length = 854
Score = 29.3 bits (64), Expect = 2.5, Method: Composition-based stats.
Identities = 26/82 (31%), Positives = 40/82 (48%), Gaps = 5/82 (6%)
Query: 20 LLHGPPGTGKTSLCKAVAQKLSIRLQSKYKI--TEFIEINSHSLFSKYFSESGKLVQKMF 77
L GP G GKT L K +A L ++ +I TE++E H++ + G + +
Sbjct: 592 LFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYME--KHAVSRLIGAPPGYVGYEEG 649
Query: 78 NKIKEAVEYEESLVCLLIDEIE 99
++ EAV V +L DEIE
Sbjct: 650 GQLTEAVRRRPYSV-ILFDEIE 670
Score = 28.9 bits (63), Expect = 2.6, Method: Composition-based stats.
Identities = 23/88 (26%), Positives = 46/88 (52%), Gaps = 7/88 (7%)
Query: 20 LLHGPPGTGKTSLCKAVAQKL-SIRLQSKYKITEFIEINSHSLF--SKYFSESGKLVQKM 76
+L G PG GKT++ + +AQ++ + K + + SL +KY G+ +++
Sbjct: 195 VLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKY---RGEFEERL 251
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTRA 104
I+E V+ + ++ L IDE+ ++ A
Sbjct: 252 KAVIQEVVQSQGEVI-LFIDELHTVVGA 278
>pdb|3IIJ|A Chain A, The Structure Of Hcinap-Adp Complex At 1.76 Angstroms
Resolution.
pdb|3IIK|A Chain A, The Structure Of Hcinap-So4 Complex At 1.95 Angstroms
Resolution
pdb|3IIL|A Chain A, The Structure Of Hcinap-Mgadp-Pi Complex At 2.0
Angstroms Resolution
pdb|3IIM|A Chain A, The Structure Of Hcinap-Dadp Complex At 2.0 Angstroms
Resolution
Length = 180
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIR 43
+LL G PG GKT+L K +A K ++
Sbjct: 14 ILLTGTPGVGKTTLGKELASKSGLK 38
>pdb|1SGW|A Chain A, Putative Abc Transporter (Atp-Binding Protein) From
Pyrococcus Furiosus Pfu-867808-001
Length = 214
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL 40
I VV HGP G GKT+L K ++ L
Sbjct: 32 IEKGNVVNFHGPNGIGKTTLLKTISTYL 59
>pdb|3THO|A Chain A, Crystal Structure Of Mre11:rad50 In Its AtpADP BOUND STATE
Length = 382
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 32/135 (23%), Positives = 53/135 (39%), Gaps = 22/135 (16%)
Query: 18 VVLLHGPPGTGKTSLCKAVAQKL---SIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQ 74
+ ++ GP G GK+SL +A++ L IR + Y ++ + F GK
Sbjct: 42 ITVVEGPNGAGKSSLFEAISFALFGNGIRYPNSYDYVNRNAVDGTARLVFQFERGGK--- 98
Query: 75 KMFNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKK 134
YE +I EI +L R + +S + + A T + Q +K
Sbjct: 99 ----------RYE------IIREINALQRKHNAKLSEILENGKKAAIAAKPTSVKQEVEK 142
Query: 135 STGLSGRTLRKIPFL 149
G+ RT + FL
Sbjct: 143 ILGIEHRTFIRTVFL 157
>pdb|2RHM|A Chain A, Crystal Structure Of A Putative Kinase (Caur_3907) From
Chloroflexus Aurantiacus J-10-Fl At 1.70 A Resolution
pdb|2RHM|B Chain B, Crystal Structure Of A Putative Kinase (Caur_3907) From
Chloroflexus Aurantiacus J-10-Fl At 1.70 A Resolution
pdb|2RHM|C Chain C, Crystal Structure Of A Putative Kinase (Caur_3907) From
Chloroflexus Aurantiacus J-10-Fl At 1.70 A Resolution
pdb|2RHM|D Chain D, Crystal Structure Of A Putative Kinase (Caur_3907) From
Chloroflexus Aurantiacus J-10-Fl At 1.70 A Resolution
Length = 193
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%)
Query: 18 VVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITE 52
++++ G P TGKT+L +A+A L + L SK E
Sbjct: 7 LIIVTGHPATGKTTLSQALATGLRLPLLSKDAFKE 41
>pdb|3K1J|A Chain A, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
pdb|3K1J|B Chain B, Crystal Structure Of Lon Protease From Thermococcus
Onnurineus Na1
Length = 604
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 19/27 (70%)
Query: 14 SWNRVVLLHGPPGTGKTSLCKAVAQKL 40
+ R VLL G PGTGK+ L +A+A+ L
Sbjct: 58 NQKRHVLLIGEPGTGKSMLGQAMAELL 84
>pdb|3QG5|A Chain A, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
pdb|3QG5|B Chain B, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
Length = 365
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 32/135 (23%), Positives = 53/135 (39%), Gaps = 22/135 (16%)
Query: 18 VVLLHGPPGTGKTSLCKAVAQKL---SIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQ 74
+ ++ GP G GK+SL +A++ L IR + Y ++ + F GK
Sbjct: 25 ITVVEGPNGAGKSSLFEAISFALFGNGIRYPNSYDYVNRNAVDGTARLVFQFERGGK--- 81
Query: 75 KMFNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKK 134
YE +I EI +L R + +S + + A T + Q +K
Sbjct: 82 ----------RYE------IIREINALQRKHNAKLSEILENGKKAAIAAKPTSVKQEVEK 125
Query: 135 STGLSGRTLRKIPFL 149
G+ RT + FL
Sbjct: 126 ILGIEHRTFIRTVFL 140
>pdb|3QF7|A Chain A, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
pdb|3QF7|B Chain B, The Mre11:rad50 Complex Forms An Atp Dependent Molecular
Clamp In Dna Double-Strand Break Repair
Length = 365
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 32/135 (23%), Positives = 53/135 (39%), Gaps = 22/135 (16%)
Query: 18 VVLLHGPPGTGKTSLCKAVAQKL---SIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQ 74
+ ++ GP G GK+SL +A++ L IR + Y ++ + F GK
Sbjct: 25 ITVVEGPNGAGKSSLFEAISFALFGNGIRYPNSYDYVNRNAVDGTARLVFQFERGGK--- 81
Query: 75 KMFNKIKEAVEYEESLVCLLIDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKK 134
YE +I EI +L R + +S + + A T + Q +K
Sbjct: 82 ----------RYE------IIREINALQRKHNAKLSEILENGKKAAIAAKPTSVKQEVEK 125
Query: 135 STGLSGRTLRKIPFL 149
G+ RT + FL
Sbjct: 126 ILGIEHRTFIRTVFL 140
>pdb|4HSE|A Chain A, Crystal Structure Of Clpb Nbd1 In Complex With Guanidinium
Chloride And Adp
Length = 397
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 45/88 (51%), Gaps = 7/88 (7%)
Query: 20 LLHGPPGTGKTSLCKAVAQKL-SIRLQSKYKITEFIEINSHSLF--SKYFSESGKLVQKM 76
+L G PG GKT++ + +AQ++ + K + + SL +KY G+ +++
Sbjct: 58 VLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKY---RGEFEERL 114
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTRA 104
I+E V+ + V L IDE+ ++ A
Sbjct: 115 KAVIQEVVQS-QGEVILFIDELHTVVGA 141
>pdb|3U5Z|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To The
T4 Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To The
T4 Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To The
T4 Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To The
T4 Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|L Chain L, Structure Of T4 Bacteriophage Clamp Loader Bound To The
T4 Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|M Chain M, Structure Of T4 Bacteriophage Clamp Loader Bound To The
T4 Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|N Chain N, Structure Of T4 Bacteriophage Clamp Loader Bound To The
T4 Clamp, Primer-Template Dna, And Atp Analog
pdb|3U5Z|O Chain O, Structure Of T4 Bacteriophage Clamp Loader Bound To The
T4 Clamp, Primer-Template Dna, And Atp Analog
pdb|3U60|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U60|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To Open
Clamp, Dna And Atp Analog
pdb|3U61|B Chain B, Structure Of T4 Bacteriophage Clamp Loader Bound To
Closed Clamp, Dna And Atp Analog And Adp
pdb|3U61|C Chain C, Structure Of T4 Bacteriophage Clamp Loader Bound To
Closed Clamp, Dna And Atp Analog And Adp
pdb|3U61|D Chain D, Structure Of T4 Bacteriophage Clamp Loader Bound To
Closed Clamp, Dna And Atp Analog And Adp
pdb|3U61|E Chain E, Structure Of T4 Bacteriophage Clamp Loader Bound To
Closed Clamp, Dna And Atp Analog And Adp
Length = 324
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 19/27 (70%), Gaps = 1/27 (3%)
Query: 19 VLLHGP-PGTGKTSLCKAVAQKLSIRL 44
++LH P PGTGKT++ KA+ ++ +
Sbjct: 50 IILHSPSPGTGKTTVAKALCHDVNADM 76
>pdb|4FCT|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|D Chain D, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 308
Score = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 45/98 (45%), Gaps = 8/98 (8%)
Query: 7 KVKSNIISWNRVV---LLHGPPGTGKTSLCKAVAQKLSIRLQSKYKI--TEFIEINSHSL 61
+ ++ + NR + L GP G GKT L K +A L ++ +I TE++E H++
Sbjct: 32 RARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYME--KHAV 89
Query: 62 FSKYFSESGKLVQKMFNKIKEAVEYEESLVCLLIDEIE 99
+ G + + ++ EAV +L D IE
Sbjct: 90 SRLIGAPPGYVGYEEGGQLTEAVR-RRPYSVILFDAIE 126
>pdb|2GZA|A Chain A, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|B Chain B, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
pdb|2GZA|C Chain C, Crystal Structure Of The Virb11 Atpase From The Brucella
Suis Type Iv Secretion System In Complex With Sulphate
Length = 361
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 20/28 (71%)
Query: 13 ISWNRVVLLHGPPGTGKTSLCKAVAQKL 40
+ RV+++ G G+GKT+L KA+ Q++
Sbjct: 172 VQLERVIVVAGETGSGKTTLMKALMQEI 199
>pdb|3HTE|A Chain A, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|B Chain B, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|C Chain C, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|D Chain D, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|E Chain E, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|F Chain F, Crystal Structure Of Nucleotide-Free Hexameric Clpx
Length = 363
Score = 27.7 bits (60), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 44/87 (50%), Gaps = 12/87 (13%)
Query: 19 VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLF-SKYFSES-GKLVQKM 76
+LL GP G+GKT L + +A+ L + F ++ +L + Y E ++QK+
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLDV---------PFTMADATTLTEAGYVGEDVENIIQKL 104
Query: 77 FNKIKEAVEYEESLVCLLIDEIESLTR 103
K V+ + + + ID+I+ ++R
Sbjct: 105 LQKCDYDVQKAQRGI-VYIDQIDKISR 130
>pdb|3HWS|A Chain A, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|B Chain B, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|C Chain C, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|D Chain D, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|E Chain E, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|F Chain F, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
Length = 363
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 52/109 (47%), Gaps = 18/109 (16%)
Query: 3 FSHSKVKSNIISWNRV------VLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEI 56
++H K N + N V +LL GP G+GKT L + +A+ L + F
Sbjct: 32 YNHYKRLRNGDTSNGVELGKSNILLIGPTGSGKTLLAETLARLLDV---------PFTMA 82
Query: 57 NSHSLF-SKYFSES-GKLVQKMFNKIKEAVEYEESLVCLLIDEIESLTR 103
++ +L + Y E ++QK+ K V+ + + + ID+I+ ++R
Sbjct: 83 DATTLTEAGYVGEDVENIIQKLLQKCDYDVQKAQRGI-VYIDQIDKISR 130
>pdb|2W58|A Chain A, Crystal Structure Of The Dnai
pdb|2W58|B Chain B, Crystal Structure Of The Dnai
Length = 202
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 21 LHGPPGTGKTSLCKAVAQKLSIR 43
LHG G GKT L A+A +L+ R
Sbjct: 59 LHGSFGVGKTYLLAAIANELAKR 81
>pdb|2F9I|B Chain B, Crystal Structure Of The Carboxyltransferase Subunit Of
Acc From Staphylococcus Aureus
pdb|2F9I|D Chain D, Crystal Structure Of The Carboxyltransferase Subunit Of
Acc From Staphylococcus Aureus
Length = 285
Score = 27.3 bits (59), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 22/107 (20%), Positives = 53/107 (49%), Gaps = 11/107 (10%)
Query: 95 IDEIESLTRARESVMSGTEPSDGVRVVNAVLTQIDQLKKKSTGLSGRTLRKIPFLT---- 150
I++ + T +E+V++GT DG++ AV+ ++ + + + R I + T
Sbjct: 98 IEKDQQKTGLKEAVVTGTAQLDGMKFGVAVMDSRFRMGSMGSVIGEKICRIIDYCTENRL 157
Query: 151 -FVKYISNNSVSMENFLIALEKTVLDLLVEEKSLPLKRNTEVPNTYL 196
F+ + ++ M+ +I+L + + + S+ LKR+++ Y+
Sbjct: 158 PFILFSASGGARMQEGIISL------MQMGKTSVSLKRHSDAGLLYI 198
>pdb|2GJK|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK6|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK6|B Chain B, Structural And Functional Insights Into The Human Upf1
Helicase Core
pdb|2GK7|A Chain A, Structural And Functional Insights Into The Human Upf1
Helicase Core
Length = 624
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 20 LLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFNK 79
L+ GPPGTGKT + L+ + + I L K ++G V ++ K
Sbjct: 199 LIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEK-IHQTGLKVVRLCAK 257
Query: 80 IKEAVEYEESLVCL 93
+EA++ S + L
Sbjct: 258 SREAIDSPVSFLAL 271
>pdb|2WJV|A Chain A, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2
pdb|2WJV|B Chain B, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2
pdb|2WJY|A Chain A, Crystal Structure Of The Complex Between Human Nonsense
Mediated Decay Factors Upf1 And Upf2 Orthorhombic Form
Length = 800
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 20 LLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFNK 79
L+ GPPGTGKT + L+ + + I L K ++G V ++ K
Sbjct: 375 LIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEK-IHQTGLKVVRLCAK 433
Query: 80 IKEAVEYEESLVCL 93
+EA++ S + L
Sbjct: 434 SREAIDSPVSFLAL 447
>pdb|2XZO|A Chain A, Upf1 Helicase - Rna Complex
pdb|2XZP|A Chain A, Upf1 Helicase
Length = 623
Score = 27.3 bits (59), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 1/74 (1%)
Query: 20 LLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFSESGKLVQKMFNK 79
L+ GPPGTGKT + L+ + + I L K ++G V ++ K
Sbjct: 198 LIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEK-IHQTGLKVVRLCAK 256
Query: 80 IKEAVEYEESLVCL 93
+EA++ S + L
Sbjct: 257 SREAIDSPVSFLAL 270
>pdb|3ADK|A Chain A, Refined Structure Of Porcine Cytosolic Adenylate Kinase
At 2.1 Angstroms Resolution
Length = 195
Score = 27.3 bits (59), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 4/61 (6%)
Query: 16 NRVVLLHGPPGTGKTSLCKAVAQKLSIRLQSKYKITEFIEINSHSLFSKYFS---ESGKL 72
++++ + G PG+GK + C+ + QK S + E++S S K S E G+L
Sbjct: 9 SKIIFVVGGPGSGKGTQCEKIVQKYGYTHLSTGDLLR-AEVSSGSARGKMLSEIMEKGQL 67
Query: 73 V 73
V
Sbjct: 68 V 68
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
0.318 0.132 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,815,181
Number of Sequences: 62578
Number of extensions: 246393
Number of successful extensions: 1134
Number of sequences better than 100.0: 117
Number of HSP's better than 100.0 without gapping: 80
Number of HSP's successfully gapped in prelim test: 37
Number of HSP's that attempted gapping in prelim test: 1024
Number of HSP's gapped (non-prelim): 126
length of query: 256
length of database: 14,973,337
effective HSP length: 97
effective length of query: 159
effective length of database: 8,903,271
effective search space: 1415620089
effective search space used: 1415620089
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)