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= 047225
(287 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 291 bits (746), Expect = 2e-79, Method: Compositional matrix adjust.
Identities = 148/274 (54%), Positives = 185/274 (67%), Gaps = 4/274 (1%)
Query: 2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
+ RAR G++DPNRPI SFLF GPTGVGKTELA LA F ++EAM+RIDM+EYMEKH
Sbjct: 573 AIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA 632
Query: 62 VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
VS+ G+PPGYVG+E GGQLTEAVR RP+SVILFDEIEKAH DV N++LQ+LDDGR+TD
Sbjct: 633 VSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDEIEKAHPDVFNILLQILDDGRLTDS 692
Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMER---GVAXXXXXXXXXXXXXXIDEV 178
G+TVD +NT+II+TSN+G +I E + ER V +DE+
Sbjct: 693 HGRTVDFRNTVIILTSNLGSPLIL-EGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEI 751
Query: 179 IVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA 238
+VFR L K Q+ +IV+I L + RL K + L +T K L E GY+P +GARPLRR
Sbjct: 752 VVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRV 811
Query: 239 IGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNV 272
I R LE LA+ IL G ++ GD V +D G V
Sbjct: 812 IQRELETPLAQKILAGEVKEGDRVQVDVGPAGLV 845
>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 = 287 bits (734), Expect = 5e-78, Method: Compositional matrix adjust.
Identities = 147/275 (53%), Positives = 184/275 (66%), Gaps = 4/275 (1%)
Query: 2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
+ RAR G++DPNRPI SFLF GPTGVGKTELA LA F ++EAM+RIDM+EYMEKH
Sbjct: 29 AIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA 88
Query: 62 VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
VS+ G+PPGYVG+E GGQLTEAVR RP+SVILFD IEKAH DV N++LQ+LDDGR+TD
Sbjct: 89 VSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQILDDGRLTDS 148
Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMER---GVAXXXXXXXXXXXXXXIDEV 178
G+TVD +NT+II+TSN+G +I E + ER V +DE+
Sbjct: 149 HGRTVDFRNTVIILTSNLGSPLIL-EGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEI 207
Query: 179 IVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA 238
+VFR L K Q+ +IV+I L + RL K + L +T K L E GY+P +GARPLRR
Sbjct: 208 VVFRPLTKEQIRQIVEIQLSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRV 267
Query: 239 IGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVI 273
I R LE LA+ IL G ++ GD V +D G V
Sbjct: 268 IQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVF 302
>pdb|4FCV|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCV|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|C Chain C, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FCW|F Chain F, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 311
Score = 276 bits (705), Expect = 1e-74, Method: Compositional matrix adjust.
Identities = 144/280 (51%), Positives = 179/280 (63%), Gaps = 4/280 (1%)
Query: 2 TLERARVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHT 61
+ RAR G++DPNRPI SFLF GPTGVGKTELA LA F ++EA +RID +EY EKH
Sbjct: 32 AIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAXIRIDXTEYXEKHA 91
Query: 62 VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
VS+ G+PPGYVG+E GGQLTEAVR RP+SVILFD IEKAH DV N++LQ LDDGR+TD
Sbjct: 92 VSRLIGAPPGYVGYEEGGQLTEAVRRRPYSVILFDAIEKAHPDVFNILLQXLDDGRLTDS 151
Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESILGSDQMER---GVAXXXXXXXXXXXXXXIDEV 178
G+TVD +NT+II TSN+G +I E + ER V +DE+
Sbjct: 152 HGRTVDFRNTVIIXTSNLGSPLIL-EGLQKGWPYERIRDEVFKVLQQHFRPEFLNRLDEI 210
Query: 179 IVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRA 238
+VFR L K Q+ +IV+I + RL K + L +T K L E GY+P +GARPLRR
Sbjct: 211 VVFRPLTKEQIRQIVEIQXSYLRARLAEKRISLELTEAAKDFLAERGYDPVFGARPLRRV 270
Query: 239 IGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMYRHR 278
I R LE LA+ IL G ++ GD V +D G V R
Sbjct: 271 IQRELETPLAQKILAGEVKEGDRVQVDVGPAGLVFAVPAR 310
>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 = 243 bits (620), Expect = 9e-65, Method: Compositional matrix adjust.
Identities = 127/265 (47%), Positives = 174/265 (65%), Gaps = 26/265 (9%)
Query: 9 GIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGS 68
G++DP RPI SF+F GPTGVGKTELA ALA FG +E+M+RIDMSEYMEKH+ S
Sbjct: 513 GLKDPKRPIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTS----- 567
Query: 69 PPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDGKGQTVDL 128
GGQLTE VR +P+SV+L D IEKAH DV N++LQ+L+DGR+TD KG+TVD
Sbjct: 568 ---------GGQLTEKVRRKPYSVVLLDAIEKAHPDVFNILLQVLEDGRLTDSKGRTVDF 618
Query: 129 KNTIIIMTSNIGDSVIARESILGSDQMERGVAXXXXXXXXXXXXXXIDEVIVFRQLNKMQ 188
+NTI+IMTSN+G S ++ ++G +++R IDE+IVF L K
Sbjct: 619 RNTILIMTSNVGAS--EKDKVMG--ELKRAF--------RPEFINRIDEIIVFHSLEKKH 666
Query: 189 LMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPLRRAIGRLLEDNLA 248
L EIV +M ++ +RL+ +++ + +T K K+ EEG + YGARPLRRAI + +ED L+
Sbjct: 667 LTEIVSLMSDQLTKRLKEQDLSIELTDAAKAKVAEEGVDLEYGARPLRRAIQKHVEDRLS 726
Query: 249 EIILTGYIQVGDSVTMDCDSGGNVI 273
E +L G I G + +D + G V+
Sbjct: 727 EELLRGNIHKGQHIVLDVEDGEFVV 751
>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And
Regulator Of Clpap Protease: Structural Basis Of
Differences In Function Of The Two Aaa+ Atpase Domains
pdb|1R6B|X Chain X, High Resolution Crystal Structure Of Clpa
Length = 758
Score = 200 bits (509), Expect = 6e-52, Method: Compositional matrix adjust.
Identities = 112/280 (40%), Positives = 162/280 (57%), Gaps = 22/280 (7%)
Query: 6 ARVGIRDPNRPISSFLFTGPTGVGKTE----LANALAFEYFGSKEAMVRIDMSEYMEKHT 61
AR G+ ++P+ SFLF GPTGVGKTE L+ AL E ++R DMSEYME+HT
Sbjct: 477 ARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIE-------LLRFDMSEYMERHT 529
Query: 62 VSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTDG 121
VS+ G+PPGYVGF+ GG LT+AV PH+V+L DEIEKAH DV N++LQ++D+G +TD
Sbjct: 530 VSRLIGAPPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDN 589
Query: 122 KGQTVDLKNTIIIMTSNIGDSVIARESI------LGSDQMERGVAXXXXXXXXXXXXXXI 175
G+ D +N +++MT+N G R+SI +D ME +
Sbjct: 590 NGRKADFRNVVLVMTTNAGVRETERKSIGLIHQDNSTDAMEE-----IKKIFTPEFRNRL 644
Query: 176 DEVIVFRQLNKMQLMEIVDIMLKEIYERLEAKNMELTVTHTFKKKLIEEGYNPSYGARPL 235
D +I F L+ + ++VD + E+ +L+ K + L V+ + L E+GY+ + GARP+
Sbjct: 645 DNIIWFDHLSTDVIHQVVDKFIVELQVQLDQKGVSLEVSQEARNWLAEKGYDRAMGARPM 704
Query: 236 RRAIGRLLEDNLAEIILTGYIQVGDSVTMDCDSGGNVIMY 275
R I L+ LA +L G + G VT+ D N + Y
Sbjct: 705 ARVIQDNLKKPLANELLFGSLVDGGQVTVALDKEKNELTY 744
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 42/148 (28%), Positives = 69/148 (46%), Gaps = 34/148 (22%)
Query: 7 RVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFF 66
++GI DP R + L GP G GKT L A+A +K A +R++ SE+ V K+
Sbjct: 200 QIGI-DPPRGV---LLYGPPGTGKTMLVKAVA---NSTKAAFIRVNGSEF-----VHKYL 247
Query: 67 GSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEK-----------AHRDVLNVMLQLLDD 115
G P V + R S+I DE++ + R+V ++++LL
Sbjct: 248 GEGPRMV-----RDVFRLARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQ 302
Query: 116 GRVTDGKGQTVDLKNTIIIMTSNIGDSV 143
DG Q+ ++K +IM +N D++
Sbjct: 303 ---MDGFDQSTNVK---VIMATNRADTL 324
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/133 (28%), Positives = 60/133 (45%), Gaps = 25/133 (18%)
Query: 20 FLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTV----SKFFGSPPGYV-- 73
GP GVGKT LA ++A + G K VRI + ++ + + G+ PG +
Sbjct: 111 LCLAGPPGVGKTSLAKSIA-KSLGRK--FVRISLGGVRDESEIRGHRRTYVGAMPGRIIQ 167
Query: 74 GFENGGQLTEAVRHRPHSVILFDEIEKAHRDVL----NVMLQLLDDGRVTDGKG----QT 125
G + G+L + V L DEI+K D + ML++LD + + +T
Sbjct: 168 GMKKAGKL--------NPVFLLDEIDKMSSDFRGDPSSAMLEVLDPEQNSSFSDHYIEET 219
Query: 126 VDLKNTIIIMTSN 138
DL + I T+N
Sbjct: 220 FDLSKVLFIATAN 232
>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 = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 36/128 (28%), Positives = 52/128 (40%), Gaps = 28/128 (21%)
Query: 7 RVGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFF 66
+VGI P L GP G GKT LA A+A E + +R+ SE V KF
Sbjct: 45 KVGIEPPK----GILLYGPPGTGKTLLAKAVATE---TNATFIRVVGSEL-----VKKFI 92
Query: 67 GSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEK-----------AHRDVLNVMLQLLDD 115
G V + + + + S+I DEI+ R+V ++QLL +
Sbjct: 93 GEGASLV-----KDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAE 147
Query: 116 GRVTDGKG 123
D +G
Sbjct: 148 MDGFDARG 155
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 34.7 bits (78), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 37/85 (43%), Gaps = 13/85 (15%)
Query: 15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVG 74
+P S L GP G GK+ LA A+A E + ++ D+ VSK+ G V
Sbjct: 58 KPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL--------VSKWMGESEKLV- 108
Query: 75 FENGGQLTEAVRHRPHSVILFDEIE 99
QL R S+I DE++
Sbjct: 109 ----KQLFAMARENKPSIIFIDEVD 129
>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 = 33.9 bits (76), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 16/24 (66%), Positives = 16/24 (66%)
Query: 20 FLFTGPTGVGKTELANALAFEYFG 43
LF GP GVGKT A ALA E FG
Sbjct: 49 LLFAGPPGVGKTTAALALARELFG 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 = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 6/60 (10%)
Query: 17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME------KHTVSKFFGSPP 70
I LF+GP G GKT A ALA + FG I+M+ E +H + +F + P
Sbjct: 38 IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAP 97
>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 = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 29/60 (48%), Gaps = 6/60 (10%)
Query: 17 ISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYME------KHTVSKFFGSPP 70
I LF+GP G GKT A ALA + FG I+M+ E +H + +F + P
Sbjct: 38 IPHLLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASDERGIDVVRHKIKEFARTAP 97
>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 = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 13/85 (15%)
Query: 15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVG 74
+P S L GP G GK+ LA A+A E + ++ D+ VSK+ G V
Sbjct: 67 KPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL--------VSKWMGESEKLV- 117
Query: 75 FENGGQLTEAVRHRPHSVILFDEIE 99
QL R S+I D+++
Sbjct: 118 ----KQLFAMARENKPSIIFIDQVD 138
>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 = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 13/85 (15%)
Query: 15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVG 74
+P S L GP G GK+ LA A+A E + ++ D+ VSK+ G V
Sbjct: 82 KPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL--------VSKWMGESEKLV- 132
Query: 75 FENGGQLTEAVRHRPHSVILFDEIE 99
QL R S+I D+++
Sbjct: 133 ----KQLFAMARENKPSIIFIDQVD 153
>pdb|3PFI|A Chain A, 2.7 Angstrom Resolution Crystal Structure Of A Probable
Holliday Junction Dna Helicase (Ruvb) From
Campylobacter Jejuni Subsp. Jejuni Nctc 11168 In
Complex With Adenosine-5'-Diphosphate
pdb|3PFI|B Chain B, 2.7 Angstrom Resolution Crystal Structure Of A Probable
Holliday Junction Dna Helicase (Ruvb) From
Campylobacter Jejuni Subsp. Jejuni Nctc 11168 In
Complex With Adenosine-5'-Diphosphate
Length = 338
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 14 NRPISSFLFTGPTGVGKTELANALAFE 40
N + LF+GP G+GKT LAN +++E
Sbjct: 52 NECLDHILFSGPAGLGKTTLANIISYE 78
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 13/85 (15%)
Query: 15 RPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVG 74
+P S L GP G GK+ LA A+A E + ++ D+ VSK+ G V
Sbjct: 49 KPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDL--------VSKWMGESEKLV- 99
Query: 75 FENGGQLTEAVRHRPHSVILFDEIE 99
QL R S+I D+++
Sbjct: 100 ----KQLFAMARENKPSIIFIDQVD 120
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 22/51 (43%), Gaps = 16/51 (31%)
Query: 16 PISSFLFTGPTGVGKTELANALAFE----------------YFGSKEAMVR 50
P LF GP G GKT LA A+A E +FG EA VR
Sbjct: 510 PSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVR 560
>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 = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 22/51 (43%), Gaps = 16/51 (31%)
Query: 16 PISSFLFTGPTGVGKTELANALAFE----------------YFGSKEAMVR 50
P LF GP G GKT LA A+A E +FG EA VR
Sbjct: 510 PSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVR 560
>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 = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 12/86 (13%)
Query: 24 GPTGVGKTELANALAFEYFGSKEAMVRIDMS-EYMEKHTVSKFFGSPPGYVGFENGGQLT 82
GP G GK+ L A++F FG+ +R S +Y+ ++ V G+ FE GG+
Sbjct: 30 GPNGAGKSSLFEAISFALFGNG---IRYPNSYDYVNRNAVD---GTARLVFQFERGGKRY 83
Query: 83 EAVR-----HRPHSVILFDEIEKAHR 103
E +R R H+ L + +E +
Sbjct: 84 EIIREINALQRKHNAKLSEILENGKK 109
>pdb|3THO|A Chain A, Crystal Structure Of Mre11:rad50 In Its AtpADP BOUND STATE
Length = 382
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 12/86 (13%)
Query: 24 GPTGVGKTELANALAFEYFGSKEAMVRIDMS-EYMEKHTVSKFFGSPPGYVGFENGGQLT 82
GP G GK+ L A++F FG+ +R S +Y+ ++ V G+ FE GG+
Sbjct: 47 GPNGAGKSSLFEAISFALFGNG---IRYPNSYDYVNRNAVD---GTARLVFQFERGGKRY 100
Query: 83 EAVR-----HRPHSVILFDEIEKAHR 103
E +R R H+ L + +E +
Sbjct: 101 EIIREINALQRKHNAKLSEILENGKK 126
>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 = 32.3 bits (72), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 22/51 (43%), Gaps = 16/51 (31%)
Query: 16 PISSFLFTGPTGVGKTELANALAFE----------------YFGSKEAMVR 50
P LF GP G GKT LA A+A E +FG EA VR
Sbjct: 48 PSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVR 98
>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 = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 40/85 (47%), Gaps = 10/85 (11%)
Query: 24 GPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTE 83
GP G GK+ L A++F FG+ + + +Y+ ++ V G+ FE GG+ E
Sbjct: 30 GPNGAGKSSLFEAISFALFGN--GIRYPNSYDYVNRNAVD---GTARLVFQFERGGKRYE 84
Query: 84 AVR-----HRPHSVILFDEIEKAHR 103
+R R H+ L + +E +
Sbjct: 85 IIREINALQRKHNAKLSEILENGKK 109
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 31.6 bits (70), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 39/153 (25%), Positives = 56/153 (36%), Gaps = 44/153 (28%)
Query: 7 RVGIRDPNRPISSFLFTGPTGVGKTELANALAF----------------EYFGSKEAMVR 50
RVGI+ P L GP G GKT LA A+A +Y G ++R
Sbjct: 209 RVGIKPPK----GVLLYGPPGTGKTLLAKAVAATIGANFIFSPASGIVDKYIGESARIIR 264
Query: 51 IDMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVML 110
+M Y ++H F +G F E A R++ ++
Sbjct: 265 -EMFAYAKEHEPCIIFMDEVDAIGGRR-----------------FSEGTSADREIQRTLM 306
Query: 111 QLLDDGRVTDGKGQTVDLKNTIIIMTSNIGDSV 143
+LL D GQT IIM +N D++
Sbjct: 307 ELLTQMDGFDNLGQTK------IIMATNRPDTL 333
>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 = 31.6 bits (70), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 38/92 (41%), Gaps = 15/92 (16%)
Query: 8 VGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFG 67
G R P R I L GP G GK+ LA A+A E + I S+ VSK+ G
Sbjct: 161 TGKRTPWRGI---LLFGPPGTGKSYLAKAVATE--ANNSTFFSISSSDL-----VSKWLG 210
Query: 68 SPPGYVGFENGGQLTEAVRHRPHSVILFDEIE 99
V L + R S+I DEI+
Sbjct: 211 ESEKLV-----KNLFQLARENKPSIIFIDEID 237
>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 = 31.6 bits (70), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 49/97 (50%), Gaps = 9/97 (9%)
Query: 7 RVGIRDPNR---PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVS 63
R+ +++P R + L GPTGVGKTE+A LA + ++++ +++ E V
Sbjct: 37 RMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL---ANAPFIKVEATKFTEVGYVG 93
Query: 64 KFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEK 100
K S + GG + +AV + ++ DEI+K
Sbjct: 94 KEVDSIIRDLTDSAGGAI-DAVEQ--NGIVFIDEIDK 127
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 35/84 (41%), Gaps = 13/84 (15%)
Query: 16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGF 75
P L GP G GKT A A+A + +R+ SE V K+ G G
Sbjct: 242 PPKGILLYGPPGTGKTLCARAVANR---TDATFIRVIGSEL-----VQKYVGE-----GA 288
Query: 76 ENGGQLTEAVRHRPHSVILFDEIE 99
+L E R + +I FDEI+
Sbjct: 289 RMVRELFEMARTKKACIIFFDEID 312
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 31.2 bits (69), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 37/88 (42%), Gaps = 21/88 (23%)
Query: 16 PISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGF 75
P L GP G GKT LA A+A E + + I + K YVG
Sbjct: 53 PAKGLLLFGPPGNGKTLLARAVATECSAT---FLNISAASLTSK------------YVG- 96
Query: 76 ENGGQLTEAV----RHRPHSVILFDEIE 99
+G +L A+ RH S+I DE++
Sbjct: 97 -DGEKLVRALFAVARHMQPSIIFIDEVD 123
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 30.8 bits (68), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 38/92 (41%), Gaps = 15/92 (16%)
Query: 8 VGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFG 67
G R P R I L GP G GK+ LA A+A E + I S+ VSK+ G
Sbjct: 39 TGKRTPWRGI---LLFGPPGTGKSYLAKAVATE--ANNSTFFSISSSDL-----VSKWLG 88
Query: 68 SPPGYVGFENGGQLTEAVRHRPHSVILFDEIE 99
V L + R S+I DEI+
Sbjct: 89 ESEKLV-----KNLFQLARENKPSIIFIDEID 115
>pdb|1G4A|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4A|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|K Chain K, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|L Chain L, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1YYF|A Chain A, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
pdb|1YYF|B Chain B, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
Length = 443
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/20 (65%), Positives = 15/20 (75%)
Query: 19 SFLFTGPTGVGKTELANALA 38
+ L GPTGVGKTE+A LA
Sbjct: 52 NILMIGPTGVGKTEIARRLA 71
>pdb|3NBX|X Chain X, Crystal Structure Of E. Coli Rava (Regulatory Atpase
Variant A) In Complex With Adp
Length = 500
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 48/113 (42%), Gaps = 24/113 (21%)
Query: 19 SFLFTGPTGVGKTELA--------NALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPP 70
S GP G+ K+ +A NA AFEY M R E + FG P
Sbjct: 43 SVFLLGPPGIAKSLIARRLKFAFQNARAFEYL-----MTRFSTPE--------EVFG-PL 88
Query: 71 GYVGFENGGQLTEAVR-HRPHSVILF-DEIEKAHRDVLNVMLQLLDDGRVTDG 121
++ G+ + P + I+F DEI KA +LN +L +++ + +G
Sbjct: 89 SIQALKDEGRYERLTSGYLPEAEIVFLDEIWKAGPAILNTLLTAINERQFRNG 141
>pdb|1DO2|A Chain A, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|B Chain B, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|C Chain C, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|D Chain D, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO0|A Chain A, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|B Chain B, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|C Chain C, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|D Chain D, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|E Chain E, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|F Chain F, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
Length = 442
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/20 (65%), Positives = 15/20 (75%)
Query: 19 SFLFTGPTGVGKTELANALA 38
+ L GPTGVGKTE+A LA
Sbjct: 51 NILMIGPTGVGKTEIARRLA 70
>pdb|1E94|E Chain E, Hslv-Hslu From E.Coli
pdb|1E94|F Chain F, Hslv-Hslu From E.Coli
pdb|1HT2|E Chain E, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|F Chain F, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|G Chain G, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|H Chain H, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT1|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|G Chain G, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|I Chain I, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
Length = 449
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/20 (65%), Positives = 15/20 (75%)
Query: 19 SFLFTGPTGVGKTELANALA 38
+ L GPTGVGKTE+A LA
Sbjct: 58 NILMIGPTGVGKTEIARRLA 77
>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 = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 36/83 (43%), Gaps = 13/83 (15%)
Query: 21 LFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ 80
L GP GVGKT LA A+A E ++ + S+++E F G VG
Sbjct: 53 LLVGPPGVGKTHLARAVAGE---ARVPFITASGSDFVE-----MFVG-----VGAARVRD 99
Query: 81 LTEAVRHRPHSVILFDEIEKAHR 103
L E + ++ DEI+ R
Sbjct: 100 LFETAKRHAPCIVFIDEIDAVGR 122
>pdb|1G3I|A Chain A, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|B Chain B, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|C Chain C, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|D Chain D, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|E Chain E, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|F Chain F, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|S Chain S, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|T Chain T, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|U Chain U, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|V Chain V, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|W Chain W, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G3I|X Chain X, Crystal Structure Of The Hsluv Protease-Chaperone
Complex
pdb|1G41|A Chain A, Crystal Structure Of Hslu Haemophilus Influenzae
pdb|1KYI|A Chain A, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|B Chain B, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|C Chain C, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|D Chain D, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|E Chain E, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|F Chain F, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|S Chain S, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|T Chain T, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|U Chain U, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|V Chain V, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|W Chain W, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
pdb|1KYI|X Chain X, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor
Complex
Length = 444
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 7 RVGIRDPNR---PISSFLFTGPTGVGKTELANALA 38
R+ +++P R + L GPTGVGKTE+A LA
Sbjct: 37 RMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLA 71
>pdb|3HJL|A Chain A, The Structure Of Full-Length Flig From Aquifex Aeolicus
Length = 329
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 20/25 (80%)
Query: 97 EIEKAHRDVLNVMLQLLDDGRVTDG 121
EIEKA R V+N++ +++D+G++ G
Sbjct: 304 EIEKAQRQVVNIIRKMIDEGKIEIG 328
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 36/83 (43%), Gaps = 13/83 (15%)
Query: 21 LFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ 80
L GP GVGKT LA A+A E ++ + S+++E F G VG
Sbjct: 77 LLVGPPGVGKTHLARAVAGE---ARVPFITASGSDFVE-----MFVG-----VGAARVRD 123
Query: 81 LTEAVRHRPHSVILFDEIEKAHR 103
L E + ++ DEI+ R
Sbjct: 124 LFETAKRHAPCIVFIDEIDAVGR 146
>pdb|1IXR|C Chain C, Ruva-Ruvb Complex
Length = 312
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 16 PISSFLFTGPTGVGKTELANALAFE 40
P+ L GP G+GKT LA+ +A E
Sbjct: 37 PLEHLLLFGPPGLGKTTLAHVIAHE 61
>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 = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 39/84 (46%), Gaps = 15/84 (17%)
Query: 21 LFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ 80
L GP GVGKT LA A+A E ++ + S+++E F G VG
Sbjct: 68 LLVGPPGVGKTHLARAVAGE---ARVPFITASGSDFVE-----MFVG-----VGAARVRD 114
Query: 81 LTE-AVRHRPHSVILFDEIEKAHR 103
L E A RH P ++ DEI+ R
Sbjct: 115 LFETAKRHAP-CIVFIDEIDAVGR 137
>pdb|1IXS|B Chain B, Structure Of Ruvb Complexed With Ruva Domain Iii
Length = 318
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 16 PISSFLFTGPTGVGKTELANALAFE 40
P+ L GP G+GKT LA+ +A E
Sbjct: 37 PLEHLLLFGPPGLGKTTLAHVIAHE 61
>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 = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 39/84 (46%), Gaps = 15/84 (17%)
Query: 21 LFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ 80
L GP GVGKT LA A+A E ++ + S+++E F G VG
Sbjct: 77 LLVGPPGVGKTHLARAVAGE---ARVPFITASGSDFVE-----MFVG-----VGAARVRD 123
Query: 81 LTE-AVRHRPHSVILFDEIEKAHR 103
L E A RH P ++ DEI+ R
Sbjct: 124 LFETAKRHAP-CIVFIDEIDAVGR 146
>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 = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 16 PISSFLFTGPTGVGKTELANALAFE 40
P+ L GP G+GKT LA+ +A E
Sbjct: 37 PLEHLLLFGPPGLGKTTLAHVIAHE 61
>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
Length = 444
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/20 (65%), Positives = 15/20 (75%)
Query: 19 SFLFTGPTGVGKTELANALA 38
+ L GPTGVGKTE+A LA
Sbjct: 52 NILXIGPTGVGKTEIARRLA 71
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 35/83 (42%), Gaps = 13/83 (15%)
Query: 21 LFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPGYVGFENGGQ 80
L GP G GKT LA A+A E +K I S+++E F G VG
Sbjct: 49 LMVGPPGTGKTLLAKAIAGE---AKVPFFTISGSDFVE-----MFVG-----VGASRVRD 95
Query: 81 LTEAVRHRPHSVILFDEIEKAHR 103
+ E + +I DEI+ R
Sbjct: 96 MFEQAKKAAPCIIFIDEIDAVGR 118
>pdb|3DZD|A Chain A, Crystal Structure Of Sigma54 Activator Ntrc4 In The
Inactive State
pdb|3DZD|B Chain B, Crystal Structure Of Sigma54 Activator Ntrc4 In The
Inactive State
Length = 368
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 32/122 (26%), Positives = 55/122 (45%), Gaps = 9/122 (7%)
Query: 21 LFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFGSPPG-YVGF--EN 77
L TG +G GK E+ L Y G K A V ++ + ++ S+ FG G + G
Sbjct: 156 LITGESGTGK-EIVARLIHRYSGRKGAFVDLNCASIPQELAESELFGHEKGAFTGALTRK 214
Query: 78 GGQLTEAVRHRPHSVILFDEIEKAHRDVLNVMLQLLDDGRVTD-GKGQTVDLKNTIIIMT 136
G+L A + DE+ + + V +L++L+ G T G Q +++ +I T
Sbjct: 215 KGKLELA----DQGTLFLDEVGELDQRVQAKLLRVLETGSFTRLGGNQKIEVDIRVISAT 270
Query: 137 SN 138
+
Sbjct: 271 NK 272
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 40/144 (27%), Positives = 55/144 (38%), Gaps = 38/144 (26%)
Query: 8 VGIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYMEKHTVSKFFG 67
+GI P + GP G GKT LA A+A + +R+ +E V K+ G
Sbjct: 177 LGIAQPK----GVILYGPPGTGKTLLARAVAHH---TDCKFIRVSGAEL-----VQKYIG 224
Query: 68 SPPGYVGFENGGQLTEAVRHRPHSVILFDEIEK-----------AHRDVLNVMLQLLD-- 114
G +L R S+I DEI+ +V ML+LL+
Sbjct: 225 E-----GSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQL 279
Query: 115 DGRVTDGKGQTVDLKNTIIIMTSN 138
DG T KN IIM +N
Sbjct: 280 DGFETS--------KNIKIIMATN 295
>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 = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 15/27 (55%)
Query: 17 ISSFLFTGPTGVGKTELANALAFEYFG 43
+ LF GP G GKT ALA E +G
Sbjct: 46 LPHLLFYGPPGTGKTSTIVALAREIYG 72
>pdb|3KO1|A Chain A, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|B Chain B, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|C Chain C, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|D Chain D, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|E Chain E, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|F Chain F, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|G Chain G, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|H Chain H, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
pdb|3KO1|I Chain I, Cystal Structure Of Thermosome From Acidianus
Tengchongensis Strain S5
Length = 553
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 94 LFDEIEKAHRDVLNVMLQLLDDGRVTDGKG 123
L DE E+A RD L + ++ DGR G G
Sbjct: 390 LVDETERALRDALGTVADVIKDGRAIAGGG 419
>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 = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 18/34 (52%), Gaps = 4/34 (11%)
Query: 7 RVGIRDPNRPISSFLFTGPTGVGKTELANALAFE 40
R+G R P L GP G GKT LA A+A E
Sbjct: 43 RIGARMPK----GILLVGPPGTGKTLLARAVAGE 72
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 44/118 (37%), Gaps = 19/118 (16%)
Query: 8 VGIRDPNRPISSFLFTGPTGVGKTELANALAFE----------------YFGSKEAMVRI 51
G+R P R L GP G GKT LA A+A E Y G E +VR
Sbjct: 142 TGLRAPAR---GLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRA 198
Query: 52 DMSEYMEKHTVSKFFGSPPGYVGFENGGQLTEAVRHRPHSVILFDEIEKAHRDVLNVM 109
+ E F + G+ + R + +I FD ++ A D + VM
Sbjct: 199 LFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVM 256
>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 = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 22/49 (44%)
Query: 9 GIRDPNRPISSFLFTGPTGVGKTELANALAFEYFGSKEAMVRIDMSEYM 57
+ D R + L GP G GK AL FG ++ID+ +++
Sbjct: 28 SLSDQPRDLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFV 76
>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 = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 18 SSFLFTGPTGVGKTELANALA 38
S+ L GPTG GKT LA LA
Sbjct: 52 SNILLIGPTGSGKTLLAETLA 72
>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 = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 18 SSFLFTGPTGVGKTELANALA 38
S+ L GPTG GKT LA LA
Sbjct: 52 SNILLIGPTGSGKTLLAETLA 72
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 18 SSFLFTGPTGVGKTELANALA 38
S+ L GPTG GKT +A LA
Sbjct: 73 SNILLIGPTGSGKTLMAQTLA 93
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
0.320 0.138 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,952,855
Number of Sequences: 62578
Number of extensions: 315175
Number of successful extensions: 1125
Number of sequences better than 100.0: 69
Number of HSP's better than 100.0 without gapping: 42
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 1072
Number of HSP's gapped (non-prelim): 73
length of query: 287
length of database: 14,973,337
effective HSP length: 98
effective length of query: 189
effective length of database: 8,840,693
effective search space: 1670890977
effective search space used: 1670890977
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)