RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy450
(478 letters)
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 366 bits (943), Expect = e-126
Identities = 114/263 (43%), Positives = 161/263 (61%), Gaps = 21/263 (7%)
Query: 201 VPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLK-RSGLLLYGPPGTGKTL 249
VPNV+W DIG L ++ E+ F+ + GL +G+LL GPPG GKTL
Sbjct: 4 VPNVTWADIGALEDIREELTMAILAPVRNPDQFKAL----GLVTPAGVLLAGPPGCGKTL 59
Query: 250 IAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
+AKAVA E +NF++VKGPELLN Y+G+SE +R VF +A+++APCV+FFDE+D+L PRR
Sbjct: 60 LAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRR 119
Query: 310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
+ +G RVV+QLL EMDG+ Q VFI+ ATNR D++DPAILRPGRLDK+L+VGL
Sbjct: 120 SDRE--TGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGL 177
Query: 370 --YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQ-MSGADIYSICSNAWTRAIRRI 426
DR++ L + K L DV+L+++ +GAD+ ++ A A+R+
Sbjct: 178 PPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQE 237
Query: 427 ITSAPQVKSAP-VIVTMDDFLGA 448
+ + V+ F A
Sbjct: 238 MARQKSGNEKGELKVSHKHFEEA 260
>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48, ATP-binding, lipid-binding, nucle binding,
nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus
musculus}
Length = 301
Score = 362 bits (931), Expect = e-124
Identities = 122/274 (44%), Positives = 162/274 (59%), Gaps = 31/274 (11%)
Query: 201 VPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKTLI 250
VP V+WEDIGGL +K E+ F T G+L YGPPG GKTL+
Sbjct: 9 VPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMT---PSKGVLFYGPPGCGKTLL 65
Query: 251 AKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG 310
AKA+A EC+ NF+++KGPELL + G+SE N+R +F KAR AAPCV+FFDELDS+A RG
Sbjct: 66 AKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARG 125
Query: 311 QED-QSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
G DRV++Q+L EMDG+ T ++VFI+GATNR D++DPAILRPGRLD+ +Y+ L
Sbjct: 126 GNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPL 185
Query: 370 YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS 429
D S++ +LKA +RK ++ DV L+ L + SGAD+ IC A AIR I S
Sbjct: 186 -PDEKSRVAILKANLRKSPVAKDVDLEFLAKM-TNGFSGADLTEICQRACKLAIRESIES 243
Query: 430 APQVKSAP---------------VIVTMDDFLGA 448
+ + + D F A
Sbjct: 244 EIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEA 277
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A*
1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Length = 806
Score = 347 bits (893), Expect = e-112
Identities = 137/383 (35%), Positives = 196/383 (51%), Gaps = 41/383 (10%)
Query: 102 LFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLS 161
F + +++ R ++Q + D +E +++ T G DL L +
Sbjct: 362 RFDREVDIGIPDATGRLEILQIHTKNMKLADDVD---LEQVANETHGHVGADLAALCSEA 418
Query: 162 VKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDA-----PS--------VPNVSWED 208
+ K+ + ++ + L D A PS VP V+WED
Sbjct: 419 ALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWED 478
Query: 209 IGGLSKLKAEILST------FRGVNRTSGLK-RSGLLLYGPPGTGKTLIAKAVATECRMN 261
IGGL +K E+ G+ G+L YGPPG GKTL+AKA+A EC+ N
Sbjct: 479 IGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQAN 538
Query: 262 FLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQ-EDQSSGVMD 320
F+++KGPELL + G+SE N+R +F KAR AAPCV+FFDELDS+A RG G D
Sbjct: 539 FISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAAD 598
Query: 321 RVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVL 380
RV++Q+L EMDG+ T ++VFI+GATNR D++DPAILRPGRLD+ +Y+ L D S++ +L
Sbjct: 599 RVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPL-PDEKSRVAIL 657
Query: 381 KAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAP--- 437
KA +RK ++ DV L+ L + SGAD+ IC A AIR I S + +
Sbjct: 658 KANLRKSPVAKDVDLEFLAKM-TNGFSGADLTEICQRACKLAIRESIESEIRRERERQTN 716
Query: 438 ------------VIVTMDDFLGA 448
+ D F A
Sbjct: 717 PSAMEVEEDDPVPEIRRDHFEEA 739
Score = 244 bits (624), Expect = 9e-73
Identities = 101/270 (37%), Positives = 147/270 (54%), Gaps = 28/270 (10%)
Query: 198 APSVPNVSWEDIGGLSKLKAEILST------FRGVNRTSGLK-RSGLLLYGPPGTGKTLI 250
S+ V ++D+GG K A+I + + G+K G+LLYGPPGTGKTLI
Sbjct: 195 EESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLI 254
Query: 251 AKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG 310
A+AVA E F + GPE+++K G+SE N+R F +A AP ++F DELD++AP+R
Sbjct: 255 ARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR- 313
Query: 311 QEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL- 369
E V R+VSQLL MDG+ V ++ ATNR + +DPA+ R GR D+ + +G+
Sbjct: 314 -EKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIP 372
Query: 370 -YEDRISQLGVLKAVVRKFKLSDDVSLDSLV---HHFPSQMSGADIYSICSNAWTRAIRR 425
R L +L+ + KL+DDV L+ + H GAD+ ++CS A +AIR+
Sbjct: 373 DATGR---LEILQIHTKNMKLADDVDLEQVANETHGH----VGADLAALCSEAALQAIRK 425
Query: 426 IITSA-------PQVKSAPVIVTMDDFLGA 448
+ + VTMDDF A
Sbjct: 426 KMDLIDLEDETIDAEVMNSLAVTMDDFRWA 455
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein;
HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A*
1e32_A* 1s3s_A* 2pjh_B
Length = 489
Score = 258 bits (662), Expect = 4e-81
Identities = 102/266 (38%), Positives = 149/266 (56%), Gaps = 24/266 (9%)
Query: 200 SVPNVSWEDIGGLSKLKAEILS------TFRGVNRTSGLKR-SGLLLYGPPGTGKTLIAK 252
S+ V ++DIGG K A+I + + G+K G+LLYGPPGTGKTLIA+
Sbjct: 197 SLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIAR 256
Query: 253 AVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQE 312
AVA E F + GPE+++K G+SE N+R F +A AP ++F DELD++AP+R E
Sbjct: 257 AVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR--E 314
Query: 313 DQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
V R+VSQLL MDG+ V ++ ATNR + +DPA+ R GR D+ + +G+ D
Sbjct: 315 KTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGI-PD 373
Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLV---HHFPSQMSGADIYSICSNAWTRAIRRIIT- 428
+L +L+ + KL+DDV L+ + H GAD+ ++CS A +AIR+ +
Sbjct: 374 ATGRLEILQIHTKNMKLADDVDLEQVANETHGH----VGADLAALCSEAALQAIRKKMDL 429
Query: 429 ------SAPQVKSAPVIVTMDDFLGA 448
+ + VTMDDF A
Sbjct: 430 IDLEDETIDAEVMNSLAVTMDDFRWA 455
Score = 42.5 bits (100), Expect = 2e-04
Identities = 24/92 (26%), Positives = 40/92 (43%), Gaps = 15/92 (16%)
Query: 139 VEYLSSVTSGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDF-QQIYDDLQSRYSDQLD 197
+E +++ T G DL L + + +++ ++ DL+ E ++ + L D
Sbjct: 396 LEQVANETHGHVGADLAALCSEAA-LQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRW 454
Query: 198 A-----PS--------VPNVSWEDIGGLSKLK 216
A PS VP V+WEDIGG S
Sbjct: 455 ALSQSNPSALRETVVEVPQVTWEDIGGRSHHH 486
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 248 bits (635), Expect = 1e-79
Identities = 109/261 (41%), Positives = 149/261 (57%), Gaps = 30/261 (11%)
Query: 201 VPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKR-SGLLLYGPPGTGKTL 249
PNV +EDIGGL K EI F V G++ G+LLYGPPGTGKTL
Sbjct: 11 RPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKV----GIEPPKGILLYGPPGTGKTL 66
Query: 250 IAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
+AKAVATE F+ V G EL+ K+IG+ ++++F A+ AP ++F DE+D++A +R
Sbjct: 67 LAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKR 126
Query: 310 GQEDQSSG--VMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYV 367
+ + G + R + QLLAEMDG DV I+GATNR D+LDPAILRPGR D+ + V
Sbjct: 127 T-DALTGGDREVQRTLMQLLAEMDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEV 185
Query: 368 GLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRII 427
D +L +LK RK L++DV+L+ + GA++ +IC+ A AIR +
Sbjct: 186 PA-PDEKGRLEILKIHTRKMNLAEDVNLEEIA-KMTEGCVGAELKAICTEAGMNAIRELR 243
Query: 428 TSAPQVKSAPVIVTMDDFLGA 448
VTMDDF A
Sbjct: 244 D----------YVTMDDFRKA 254
>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase,
ATP-binding cassette, ATP-binding, endosome, MEM
nucleotide-binding; 2.70A {Saccharomyces cerevisiae}
PDB: 3eih_A* 2rko_A 3mhv_C
Length = 322
Score = 244 bits (625), Expect = 1e-77
Identities = 87/265 (32%), Positives = 135/265 (50%), Gaps = 29/265 (10%)
Query: 201 VPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKTLI 250
PNV WED+ GL K + F+G + + SG+LLYGPPGTGK+ +
Sbjct: 12 KPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPT----SGILLYGPPGTGKSYL 67
Query: 251 AKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRG 310
AKAVATE F +V +L++K++G+SE+ ++ +F AR P ++F D++D+L RG
Sbjct: 68 AKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRG 127
Query: 311 QEDQSSGVMDRVVSQLLAEMDGV-HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
+ + S R+ ++LL +M+GV + SQ V +LGATN LD AI R R ++ +Y+ L
Sbjct: 128 EGE--SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPL 183
Query: 370 YEDRISQLGVLKAVVRKFKLS-DDVSLDSLV---HHFPSQMSGADIYSICSNAWTRAIRR 425
D ++ + + V +L + SG+DI + +A + IR+
Sbjct: 184 -PDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGY----SGSDIAVVVKDALMQPIRK 238
Query: 426 IITSAPQVKSAPVIVTMDDFLGACS 450
I SA K L CS
Sbjct: 239 IQ-SATHFKDVSTEDDETRKLTPCS 262
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 241 bits (617), Expect = 2e-76
Identities = 83/271 (30%), Positives = 132/271 (48%), Gaps = 34/271 (12%)
Query: 201 VPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKTLI 250
PNV W D+ GL K + F G G+LL+GPPGTGK+ +
Sbjct: 6 RPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPW----RGILLFGPPGTGKSYL 61
Query: 251 AKAVATECRM-NFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
AKAVATE F ++ +L++K++G+SE+ ++N+F AR P ++F DE+DSL R
Sbjct: 62 AKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR 121
Query: 310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQD-VFILGATNRVDLLDPAILRPGRLDKSLYVG 368
+ + S R+ ++ L +M GV D + +LGATN +LD AI R R +K +Y+
Sbjct: 122 SENE--SEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIP 177
Query: 369 LYEDRISQLGVLKAVVRKFKLS-DDVSLDSLV---HHFPSQMSGADIYSICSNAWTRAIR 424
L + ++ + K + + S + L + SGADI I +A + +R
Sbjct: 178 L-PEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGY----SGADISIIVRDALMQPVR 232
Query: 425 RIITS-----APQVKSAPVIVTMDDFLGACS 450
++ ++ A +DD L CS
Sbjct: 233 KVQSATHFKKVRGPSRADPNHLVDDLLTPCS 263
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 235 bits (601), Expect = 2e-74
Identities = 82/266 (30%), Positives = 123/266 (46%), Gaps = 26/266 (9%)
Query: 199 PSVPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKT 248
V W DI G K + F G+ + GLLL+GPPG GKT
Sbjct: 13 EGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPA----KGLLLFGPPGNGKT 68
Query: 249 LIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPR 308
L+A+AVATEC FL + L +KY+G E+ +R +F AR P ++F DE+DSL
Sbjct: 69 LLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSE 128
Query: 309 RGQEDQSSGVMDRVVSQLLAEMDGVHTSQD---VFILGATNRVDLLDPAILRPGRLDKSL 365
R + R+ ++ L E DG+ + D + +L ATNR LD A LR R K +
Sbjct: 129 RSSSE--HEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR--RFTKRV 184
Query: 366 YVGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIR 424
YV L D ++ +L +++K D +L L SG+D+ ++ +A IR
Sbjct: 185 YVSL-PDEQTRELLLNRLLQKQGSPLDTEALRRLAKIT-DGYSGSDLTALAKDAALEPIR 242
Query: 425 RIITSAPQVKSAPVI--VTMDDFLGA 448
+ + + +T DF +
Sbjct: 243 ELNVEQVKCLDISAMRAITEQDFHSS 268
>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural
genomics consortium, ATP- hydrolase, magnesium,
metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo
sapiens}
Length = 357
Score = 234 bits (599), Expect = 2e-73
Identities = 80/265 (30%), Positives = 131/265 (49%), Gaps = 25/265 (9%)
Query: 199 PSVPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKT 248
P V+WEDI G+ KA I F G+ G+LL+GPPGTGKT
Sbjct: 76 DHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPP----KGILLFGPPGTGKT 131
Query: 249 LIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPR 308
LI K +A++ F ++ L +K++G+ E+ +R +F AR P V+F DE+DSL +
Sbjct: 132 LIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQ 191
Query: 309 RGQEDQSSGVMDRVVSQLLAEMDGVHTSQD--VFILGATNRVDLLDPAILRPGRLDKSLY 366
RG + R+ ++ L ++DG TS + + ++GATNR +D A R RL K LY
Sbjct: 192 RGDGE--HESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR--RLVKRLY 247
Query: 367 VGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR 425
+ L + ++ ++ ++ K + + ++ +V SGAD+ +C A IR
Sbjct: 248 IPL-PEASARKQIVINLMSKEQCCLSEEEIEQIVQQ-SDAFSGADMTQLCREASLGPIRS 305
Query: 426 IITSAPQVKSAPVI--VTMDDFLGA 448
+ T+ + + + DF A
Sbjct: 306 LQTADIATITPDQVRPIAYIDFENA 330
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 232 bits (593), Expect = 4e-72
Identities = 82/296 (27%), Positives = 141/296 (47%), Gaps = 26/296 (8%)
Query: 168 KQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILST----- 222
++ ++F+ + +L + +++ + V ++DI G K +
Sbjct: 77 PTTATRKKKDLKNFRNVDSNLANLIMNEI-VDNGTAVKFDDIAGQDLAKQALQEIVILPS 135
Query: 223 -----FRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQ 277
F G+ + GLLL+GPPG GKT++AKAVA E F + L +KY+G+
Sbjct: 136 LRPELFTGLRAPA----RGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGE 191
Query: 278 SEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHTSQ 337
E+ +R +F AR P ++F D++DSL R + + R+ ++ L E DGV ++
Sbjct: 192 GEKLVRALFAVARELQPSIIFIDQVDSLLCERREGE--HDASRRLKTEFLIEFDGVQSAG 249
Query: 338 D--VFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLS-DDVS 394
D V ++GATNR LD A+LR R K +YV L + ++L +LK ++ K
Sbjct: 250 DDRVLVMGATNRPQELDEAVLR--RFIKRVYVSL-PNEETRLLLLKNLLCKQGSPLTQKE 306
Query: 395 LDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVI--VTMDDFLGA 448
L L SG+D+ ++ +A IR + + SA + + + DF +
Sbjct: 307 LAQLARMTDG-YSGSDLTALAKDAALGPIRELKPEQVKNMSASEMRNIRLSDFTES 361
>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta
domain, C-terminal helix, ATP-binding, E
nucleotide-binding; 2.90A {Saccharomyces cerevisiae}
PDB: 2qpa_A*
Length = 355
Score = 229 bits (585), Expect = 3e-71
Identities = 81/247 (32%), Positives = 130/247 (52%), Gaps = 32/247 (12%)
Query: 200 SVPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKTL 249
PNV WED+ GL K + F+G + + SG+LLYGPPGTGK+
Sbjct: 44 EKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPT----SGILLYGPPGTGKSY 99
Query: 250 IAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
+AKAVATE F +V +L++K++G+SE+ ++ +F AR P ++F D++D+L R
Sbjct: 100 LAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTR 159
Query: 310 GQEDQSSGVMDRVVSQLLAEMDGV-HTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVG 368
G+ + S R+ ++LL +M+GV + SQ V +LGATN LD AI R R ++ +Y+
Sbjct: 160 GEGE--SEASRRIKTELLVQMNGVGNDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIP 215
Query: 369 L--YEDRISQLGVLKAVVRKFK-LSDDVSLDSLV---HHFPSQMSGADIYSICSNAWTRA 422
L R + + V + +L + SG+DI + +A +
Sbjct: 216 LPDLAARTTM---FEINVGDTPSVLTKEDYRTLGAMTEGY----SGSDIAVVVKDALMQP 268
Query: 423 IRRIITS 429
IR+I ++
Sbjct: 269 IRKIQSA 275
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 218 bits (558), Expect = 4e-68
Identities = 53/261 (20%), Positives = 104/261 (39%), Gaps = 33/261 (12%)
Query: 208 DIGGLSKLKAE----ILSTFRGVNRTSGLKR-SGLLLYGPPGTGKTLIAKAVATECRMNF 262
+ G A ++ + + +K L ++G G GK+ + V + +N
Sbjct: 5 KLDGFYIAPAFMDKLVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINP 64
Query: 263 LAVKGPELLNKYIGQSEENIRNVFLKA----RSAAPCVVFFDELDSLAPRRGQEDQSSGV 318
+ + EL + G+ + IR + +A R C +F ++LD+ A R G Q V
Sbjct: 65 IMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQ-YTV 123
Query: 319 MDRVVSQLL---------AEMDGVHTSQD---VFILGATNRVDLLDPAILRPGRLDKSLY 366
+++V+ L ++ G++ Q+ V I+ N L ++R GR++K +
Sbjct: 124 NNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYW 183
Query: 367 VGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSIC---SNAWTRAI 423
EDRI GV + R +D+V + +V G I + + +
Sbjct: 184 APTREDRI---GVCTGIFR----TDNVPAEDVV-KIVDNFPGQSIDFFGALRARVYDDEV 235
Query: 424 RRIITSAPQVKSAPVIVTMDD 444
R+ ++ K ++ D
Sbjct: 236 RKWVSGTGIEKIGDKLLNSFD 256
>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA
ATPase, ATP-binding, coiled coil, membrane,
nucleotide-binding, phosphorylation; HET: ATP; 3.00A
{Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A
2jq9_A 2k3w_A 1yxr_A
Length = 444
Score = 221 bits (564), Expect = 3e-67
Identities = 81/270 (30%), Positives = 131/270 (48%), Gaps = 28/270 (10%)
Query: 199 PSVPNVSWEDIGGLSKLKAEILST----------FRGVNRTSGLKRSGLLLYGPPGTGKT 248
PNV W D+ GL K + F G G+LL+GPPGTGK+
Sbjct: 126 IERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPW----RGILLFGPPGTGKS 181
Query: 249 LIAKAVATECRM-NFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAP 307
+AKAVATE F ++ +L++K++G+SE+ ++N+F AR P ++F DE+DSL
Sbjct: 182 YLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCG 241
Query: 308 RRGQEDQSSGVMDRVVSQLLAEMDGVHTSQD-VFILGATNRVDLLDPAILRPGRLDKSLY 366
R + + S R+ ++ L +M GV D + +LGATN +LD AI R R +K +Y
Sbjct: 242 SRSENE--SEAARRIKTEFLVQMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIY 297
Query: 367 VGLYEDRISQLGVLKAVVRKFKLS-DDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRR 425
+ L + ++ + + + + S + L SGADI I +A + +R+
Sbjct: 298 IPL-PEAHARAAMFRLHLGSTQNSLTEADFQELGRKT-DGYSGADISIIVRDALMQPVRK 355
Query: 426 IITS-----APQVKSAPVIVTMDDFLGACS 450
+ ++ A ++D L CS
Sbjct: 356 VQSATHFKKVRGPSRADPNCIVNDLLTPCS 385
>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics,
structural G consortium, SGC, ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo
sapiens}
Length = 262
Score = 164 bits (417), Expect = 1e-47
Identities = 80/217 (36%), Positives = 120/217 (55%), Gaps = 16/217 (7%)
Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPC 295
G LL GPPG GKTL+AKAVATE ++ FLA+ G E + G +R++F +AR+ APC
Sbjct: 41 GALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPC 100
Query: 296 VVFFDELDSLAPRRGQEDQSSGVMDR--VVSQLLAEMDGVHTSQDVFILGATNRVDLLDP 353
+V+ DE+D++ +R + ++QLL EMDG+ T+ V +L +TNR D+LD
Sbjct: 101 IVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDG 160
Query: 354 AILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDS--LVHHFPSQMSGADI 411
A++RPGRLD+ +++ L + + + ++ KL+ + S L P SGADI
Sbjct: 161 ALMRPGRLDRHVFIDL-PTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPG-FSGADI 218
Query: 412 YSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA 448
+IC+ A A R TS V +F A
Sbjct: 219 ANICNEAALHAAREGHTS----------VHTLNFEYA 245
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 160 bits (408), Expect = 4e-46
Identities = 82/256 (32%), Positives = 129/256 (50%), Gaps = 29/256 (11%)
Query: 202 PNVSWEDIGGLSKLKAEI------LSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
P V+++D+ G + K E+ L + G+LL GPPG GKT +A+AVA
Sbjct: 35 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA 94
Query: 256 TECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
E R+ F+ G + + ++G +R++F A+ APC+VF DE+D++ +RG
Sbjct: 95 GEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRG----- 149
Query: 316 SGV------MDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
SGV ++ ++QLL EMDG + ++ ATNR D+LDPA+LRPGR D+ + +
Sbjct: 150 SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDA 209
Query: 370 YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS 429
D + +L+ R L++DV L L P GAD+ ++ + A A R
Sbjct: 210 -PDVKGREQILRIHARGKPLAEDVDLALLAKRTPG-FVGADLENLLNEAALLAARE---- 263
Query: 430 APQVKSAPVIVTMDDF 445
+TM D
Sbjct: 264 ------GRRKITMKDL 273
>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain,
ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus}
SCOP: c.37.1.20 PDB: 1nsf_A*
Length = 272
Score = 160 bits (406), Expect = 5e-46
Identities = 41/278 (14%), Positives = 90/278 (32%), Gaps = 28/278 (10%)
Query: 177 QKEDFQQIYDDLQSRYSDQLDAPSVPNVSWEDIGGLSKLKAEILSTFRG-VNRTSGLKRS 235
D++ + + + I +L V +T R+
Sbjct: 5 HHHHHHGSTMDIKPAF--GTNQEDYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRT 62
Query: 236 ---GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEEN-IRNVFLKARS 291
+LL GPP +GKT +A +A E F+ + P+ + + ++ ++ +F A
Sbjct: 63 PLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYK 122
Query: 292 AAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVHT-SQDVFILGATNRVDL 350
+ V D+++ L + V+ LL + + + I+G T+R D+
Sbjct: 123 SQLSCVVVDDIERLLDYV---PIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDV 179
Query: 351 LDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGAD 410
L + +++V L + D ++ Q+ G
Sbjct: 180 LQ-EMEMLNAFSTTIHVPNIATGEQ----LLEALELLGNFKDKERTTIAQ----QVKGKK 230
Query: 411 IYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDFLGA 448
++ I++++ + FL
Sbjct: 231 VWI--------GIKKLLMLIEMSLQMDPEYRVRKFLAL 260
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 159 bits (404), Expect = 8e-46
Identities = 80/256 (31%), Positives = 138/256 (53%), Gaps = 29/256 (11%)
Query: 202 PNVSWEDIGGLSKLKAEI------LSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
++ D+ G + K E+ L + G G+L+ GPPGTGKTL+AKA+A
Sbjct: 7 IKTTFADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIA 66
Query: 256 TECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
E ++ F + G + + ++G +R++F +A+ AAPC++F DE+D++ +RG
Sbjct: 67 GEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRG----- 121
Query: 316 SGV------MDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
+G+ ++ ++Q+L EMDG ++ + ++ ATNR D+LDPA+LRPGR D+ + VGL
Sbjct: 122 AGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGL 181
Query: 370 YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS 429
D + +LK +R+ L+ D+ + P SGAD+ ++ + A A R
Sbjct: 182 -PDVRGREQILKVHMRRVPLAPDIDAAIIARGTPG-FSGADLANLVNEAALFAARG---- 235
Query: 430 APQVKSAPVIVTMDDF 445
+V+M +F
Sbjct: 236 ------NKRVVSMVEF 245
>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB:
1iy0_A* 1iy1_A*
Length = 254
Score = 159 bits (403), Expect = 9e-46
Identities = 82/256 (32%), Positives = 129/256 (50%), Gaps = 29/256 (11%)
Query: 202 PNVSWEDIGGLSKLKAEI------LSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
P V+++D+ G + K E+ L + G+LL GPPG GKT +A+AVA
Sbjct: 11 PKVTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVA 70
Query: 256 TECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
E R+ F+ G + + ++G +R++F A+ APC+VF DE+D++ +RG
Sbjct: 71 GEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRG----- 125
Query: 316 SGV------MDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
SGV ++ ++QLL EMDG + ++ ATNR D+LDPA+LRPGR D+ + +
Sbjct: 126 SGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDA 185
Query: 370 YEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITS 429
D + +L+ R L++DV L L P GAD+ ++ + A A R
Sbjct: 186 -PDVKGREQILRIHARGKPLAEDVDLALLAKRTPG-FVGADLENLLNEAALLAARE---- 239
Query: 430 APQVKSAPVIVTMDDF 445
+TM D
Sbjct: 240 ------GRRKITMKDL 249
>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding,
cell CELL division, hydrolase, membrane, metal-binding;
3.30A {Helicobacter pylori} PDB: 2r65_A*
Length = 268
Score = 157 bits (400), Expect = 4e-45
Identities = 82/253 (32%), Positives = 129/253 (50%), Gaps = 21/253 (8%)
Query: 202 PNVSWEDIGGLSKLKAEI------LSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
PNV ++D+ G + K E+ L G+LL GPPGTGKTL+AKAVA
Sbjct: 6 PNVRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVA 65
Query: 256 TECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
E + F ++ G + ++G +R++F A+ AP ++F DE+D++ R
Sbjct: 66 GEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVV 125
Query: 316 SGVMDR--VVSQLLAEMDGVHTSQD-VFILGATNRVDLLDPAILRPGRLDKSLYVGLYED 372
SG +R ++QLLAEMDG + V +L ATNR ++LDPA++RPGR D+ + V D
Sbjct: 126 SGNDEREQTLNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDK-PD 184
Query: 373 RISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQ 432
++ +LK ++ KL++DV+L + ++GAD+ +I + A A R
Sbjct: 185 FNGRVEILKVHIKGVKLANDVNLQEVAKLTAG-LAGADLANIINEAALLAGRN------- 236
Query: 433 VKSAPVIVTMDDF 445
V
Sbjct: 237 ---NQKEVRQQHL 246
>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A
{Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB:
2cea_A* 3kds_E*
Length = 476
Score = 146 bits (372), Expect = 3e-39
Identities = 76/216 (35%), Positives = 123/216 (56%), Gaps = 23/216 (10%)
Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPC 295
G+LL GPPGTGKTL+A+AVA E + F + G + + ++G +R++F +A++ APC
Sbjct: 51 GILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPC 110
Query: 296 VVFFDELDSLAPRRGQEDQSSGVM------DRVVSQLLAEMDGVHTSQDVFILGATNRVD 349
+VF DE+D++ RG +G+ ++ ++QLL EMDG + + + ++ ATNR D
Sbjct: 111 IVFIDEIDAVGRHRG-----AGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPD 165
Query: 350 LLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGA 409
+LDPA+LRPGR DK + V D + + +L+ R L++DV+L+ + P GA
Sbjct: 166 ILDPALLRPGRFDKKIVVDP-PDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPG-FVGA 223
Query: 410 DIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDF 445
D+ ++ + A A R +TM DF
Sbjct: 224 DLENLVNEAALLAARE----------GRDKITMKDF 249
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 145 bits (369), Expect = 1e-38
Identities = 73/218 (33%), Positives = 114/218 (52%), Gaps = 27/218 (12%)
Query: 236 GLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPC 295
G+LL GPPG GKT +A+AVA E R+ F+ G + + ++G +R++F A+ APC
Sbjct: 66 GVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPC 125
Query: 296 VVFFDELDSLAPRRG--------QEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNR 347
+VF DE+D++ +RG + +Q+ ++QLL EMDG + ++ ATNR
Sbjct: 126 IVFIDEIDAVGRKRGSGVGGGNDEREQT-------LNQLLVEMDGFEKDTAIVVMAATNR 178
Query: 348 VDLLDPAILRPGRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMS 407
D+LDPA+LRPGR D+ + + D + +L+ R L++DV L L P
Sbjct: 179 PDILDPALLRPGRFDRQIAIDA-PDVKGREQILRIHARGKPLAEDVDLALLAKRTPG-FV 236
Query: 408 GADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDDF 445
GAD+ ++ + A A R +TM D
Sbjct: 237 GADLENLLNEAALLAARE----------GRRKITMKDL 264
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 80.2 bits (197), Expect = 7e-17
Identities = 47/271 (17%), Positives = 94/271 (34%), Gaps = 38/271 (14%)
Query: 206 WEDIGGLSKLKAEILST---------FRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVAT 256
++ GL +K I T + + + G PGTGKT +A +A
Sbjct: 30 DRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAG 89
Query: 257 E-CRMNFLA------VKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRR 309
R+ ++ V +L+ +YIG + + V +A V+F DE L
Sbjct: 90 LLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAM---GGVLFIDEAYYLYRPD 146
Query: 310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVD---LLDPAILRPGRLDKSLY 366
+ D + LL M+ V + G +R++ +P R+ +
Sbjct: 147 NERDY----GQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSNPGFRS--RIAHHIE 200
Query: 367 VGLYE-DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMS------GADIYSICSNAW 419
Y + + ++ + ++++ + +L + + + I + A
Sbjct: 201 FPDYSDEELFEIAGHMLDDQNYQMTPEAE-TALRAYIGLRRNQPHFANARSIRNALDRAR 259
Query: 420 TRAIRRIIT--SAPQVKSAPVIVTMDDFLGA 448
R R+ T S P A + +D +
Sbjct: 260 LRQANRLFTASSGPLDARALSTIAEEDIRAS 290
>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding,
chromatin regulator, growth regulation, hydrolase,
nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo
sapiens} PDB: 2xsz_A*
Length = 456
Score = 76.9 bits (189), Expect = 2e-15
Identities = 52/251 (20%), Positives = 85/251 (33%), Gaps = 41/251 (16%)
Query: 194 DQLDAPSVPNVSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKA 253
LD + + + G + E + ++ + +LL GPPGTGKT +A A
Sbjct: 24 LGLDESGLAKQAASGLVGQENAR-EACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALA 82
Query: 254 VATE--CRMNFLAVKGPELLNKYIGQSEENIRNVFLKA---RSAAPCVVFFDELDSLAPR 308
+A E ++ F + G E+ + I ++ E + F +A R V+ E+ L P
Sbjct: 83 IAQELGSKVPFCPMVGSEVYSTEIKKT-EVLMENFRRAIGLRIKETKEVYEGEVTELTPC 141
Query: 309 R------GQEDQSSGVM---------------DRVVSQLLAEMDGVHTSQDVFILGATNR 347
G S V+ + L E V ++I +
Sbjct: 142 ETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKE--RVEAGDVIYIEANSGA 199
Query: 348 VDLLDPAILRPGRLDKSL--YVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQ 405
V D YV L + V +K ++ DV+L L
Sbjct: 200 VKRQGRCDTYATEFDLEAEEYVPLPKGD---------VHKKKEIIQDVTLHDLDVANARP 250
Query: 406 MSGADIYSICS 416
G DI S+
Sbjct: 251 QGGQDILSMMG 261
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 61.0 bits (147), Expect = 6e-10
Identities = 64/408 (15%), Positives = 120/408 (29%), Gaps = 132/408 (32%)
Query: 30 HHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYVYFKLCSFDSVNVKSNETKDQQCKQQHK 89
+ DI+ + + + D + ++ + E
Sbjct: 16 YQYKDILSVFEDAFVDNFDCKDVQDMPKSI--------------LSKEEIDH-------- 53
Query: 90 KKLVLIRKQIQKLFLKTINVLPLTEPERRLLIQYQL---DCLGGDYGFDASLVEYLSSVT 146
+++ K L+ L L++ E Q + L +Y F S ++
Sbjct: 54 ---IIMSKDAVSGTLRLFWTL-LSKQEE----MVQKFVEEVLRINYKFLMSPIKTEQRQP 105
Query: 147 SGFERHDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIYDDLQSRYSDQLDAPSVPNVSW 206
S R + RL N Q K ++ + Q Y L+
Sbjct: 106 SMMTRMYIEQRDRLYNDN----QVFAKYNVSRL---QPYLKLRQ---------------- 142
Query: 207 EDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA----TECRMNF 262
L +L+ +L+ G G+GKT +A V +C+M+F
Sbjct: 143 ----ALLELRPA----------------KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDF 182
Query: 263 ----LAV---KGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQS 315
L + PE + E ++ + + + D + + +
Sbjct: 183 KIFWLNLKNCNSPETV-------LEMLQKLLYQIDPN-----WTSRSDHSSNIKLRIHSI 230
Query: 316 SGVMDRVVSQ------LLAEMDGVHTSQ--DVF-----ILGATNR----VDLLDPAILRP 358
+ R++ LL + V ++ + F IL T R D L A
Sbjct: 231 QAELRRLLKSKPYENCLLV-LLNVQNAKAWNAFNLSCKIL-LTTRFKQVTDFLSAATTTH 288
Query: 359 GRLDKSLYVGLYEDRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQM 406
LD + L D + L +LK + D L P ++
Sbjct: 289 ISLDHHS-MTLTPDEVKSL-LLKYL--------DCRPQDL----PREV 322
Score = 37.5 bits (86), Expect = 0.010
Identities = 26/199 (13%), Positives = 67/199 (33%), Gaps = 64/199 (32%)
Query: 3 YIESFHNRINEDILSH--LLTNYFATPRYHHLNDIVKINLKKYNLDIFKY---------- 50
Y+E NE L H ++ +Y P+ +D++ L +Y + +
Sbjct: 432 YLELKVKLENEYAL-HRSIVDHY-NIPKTFDSDDLIPPYLDQY---FYSHIGHHLKNIEH 486
Query: 51 -DEVN-----YLCNVKYVYFKLCSFDSVNVKSNETKD--QQCKQQHKKKLVLIRKQIQKL 102
+ + +L + +++ K+ + S + QQ L + I
Sbjct: 487 PERMTLFRMVFL-DFRFLEQKIRHDSTAWNASGSILNTLQQ--------LKFYKPYICD- 536
Query: 103 FLKTINVLPLTEPERRLLIQYQLDCLGGDYGFDASLVEYLSSVTSGFERHDLTCLVRLSV 162
+P+ L+ +++++L + T L+R+++
Sbjct: 537 ----------NDPKYERLVN--------------AILDFLPKIEENLICSKYTDLLRIAL 572
Query: 163 KNKMLKQGINK---RDLQK 178
+ + I + + +Q+
Sbjct: 573 MAE--DEAIFEEAHKQVQR 589
>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 516
Score = 52.6 bits (126), Expect = 2e-07
Identities = 25/83 (30%), Positives = 37/83 (44%), Gaps = 12/83 (14%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFL---A--VKGPELLNKYIGQSEEN-------IRN 284
+LYGPPG GKT A VA E + L A V+ LLN + + +N N
Sbjct: 80 AMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHN 139
Query: 285 VFLKARSAAPCVVFFDELDSLAP 307
+ + V+ DE+D ++
Sbjct: 140 EEAQNLNGKHFVIIMDEVDGMSG 162
>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin,
S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber
suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B*
2dvw_B*
Length = 83
Score = 47.3 bits (113), Expect = 3e-07
Identities = 24/77 (31%), Positives = 34/77 (44%), Gaps = 11/77 (14%)
Query: 372 DRISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAP 431
DR + + + K LS++V L+ V P ++SGADI SIC + A+R
Sbjct: 2 DRRQKRLIFSTITSKMNLSEEVDLEDYVAR-PDKISGADINSICQESGMLAVRENRY--- 57
Query: 432 QVKSAPVIVTMDDFLGA 448
IV DF A
Sbjct: 58 -------IVLAKDFEKA 67
>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats,
A-helical domain, structural genomics, NPPSFA; 2.20A
{Saccharomyces cerevisiae} PDB: 2dzo_B
Length = 82
Score = 46.2 bits (110), Expect = 6e-07
Identities = 17/70 (24%), Positives = 28/70 (40%), Gaps = 11/70 (15%)
Query: 379 VLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPV 438
+ + K L+ + LDSL+ +SGA I +I A RA+R+
Sbjct: 6 IFGTIASKMSLAPEADLDSLIIR-NDSLSGAVIAAIMQEAGLRAVRKNRY---------- 54
Query: 439 IVTMDDFLGA 448
++ D A
Sbjct: 55 VILQSDLEEA 64
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 46.0 bits (110), Expect = 2e-05
Identities = 20/76 (26%), Positives = 30/76 (39%), Gaps = 25/76 (32%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLA-------VKGPELLNKYIGQSEENIRNVFLKA 289
++L+GPPGTGKT +A+ +A + VK IR +A
Sbjct: 53 MILWGPPGTGKTTLAEVIARYANADVERISAVTSGVK--------------EIREAIERA 98
Query: 290 RSAA----PCVVFFDE 301
R ++F DE
Sbjct: 99 RQNRNAGRRTILFVDE 114
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA
replication initation factor, cell cycle control factor;
HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11
c.37.1.20
Length = 389
Score = 44.0 bits (103), Expect = 7e-05
Identities = 21/163 (12%), Positives = 43/163 (26%), Gaps = 33/163 (20%)
Query: 217 AEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE----CRMNFLAVKGPELLN 272
++ R G L G PGTGKT+ + + F+ + G N
Sbjct: 27 QQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRN 86
Query: 273 KY----------------IGQSEENIRNVFLKARSA--APCVVFFDELDSLAPRRGQEDQ 314
G S + + ++ + D+ +LAP
Sbjct: 87 FTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFI 146
Query: 315 SSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILR 357
L + + + ++ + +L+
Sbjct: 147 R-----------LGQEADKLGAFRIALVIVGHNDAVLNNLDPS 178
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 42.8 bits (101), Expect = 7e-05
Identities = 31/102 (30%), Positives = 41/102 (40%), Gaps = 19/102 (18%)
Query: 233 KRSGLLLYGPPGTGKTLIAKAVATE-CRMNF--LAVKGPELLNK----YIGQSEENIRNV 285
K GL L+G G GKT + A+A E + N L V PEL + Q+ +
Sbjct: 53 KMKGLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLDY 112
Query: 286 FLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLL 327
K V+ D+L G E SS V D V +L
Sbjct: 113 IKKVP-----VLMLDDL-------GAEAMSSWVRDDVFGPIL 142
>2chg_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATPase, ATP-binding,
nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus
fulgidus}
Length = 226
Score = 43.0 bits (102), Expect = 8e-05
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 25/84 (29%)
Query: 237 LLLYGPPGTGKTLIAKAVATE-----CRMNFLAVKGPELLNKYIGQSEEN----IRN--- 284
LL GPPGTGKT A A+A + R NF+ +N S+E +R+
Sbjct: 41 LLFSGPPGTGKTATAIALARDLFGENWRDNFI------EMNA----SDERGIDVVRHKIK 90
Query: 285 VFLKARSAAPC---VVFFDELDSL 305
F + ++F DE D+L
Sbjct: 91 EFARTAPIGGAPFKIIFLDEADAL 114
>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 386
Score = 43.5 bits (102), Expect = 1e-04
Identities = 29/162 (17%), Positives = 54/162 (33%), Gaps = 41/162 (25%)
Query: 237 LLLYGPPGTGKTLIAKAVATE-----------CRMNFLAVKGPELLNKYIGQSEEN---- 281
+ +YG GTGKT + K V ++ +N + P + + +S +
Sbjct: 48 IFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPF 107
Query: 282 ---------IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG 332
R V + V+ DE+D+ + + L+ ++
Sbjct: 108 TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYNDDILYK----------LSRINS 157
Query: 333 VHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGLYEDRI 374
+ +G TN V +D LD + L E+ I
Sbjct: 158 EVNKSKISFIGITNDVKFVD-------LLDPRVKSSLSEEEI 192
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 43.9 bits (103), Expect = 1e-04
Identities = 63/412 (15%), Positives = 118/412 (28%), Gaps = 152/412 (36%)
Query: 98 QIQKLFLKTINVLPLTEPERRLLIQYQLDCLGGDYGFD--ASLVE----YLSSVTSGFER 151
Q+Q+ F K L EP + D D + E +L V+S E
Sbjct: 32 QLQEQFNKI-----LPEPT---------EGFAAD---DEPTTPAELVGKFLGYVSSLVEP 74
Query: 152 HDLTCLVRLSVKNKMLKQGINKRDLQKEDFQQIY---DDLQSRYSDQLDAPSVPNVSWED 208
+ ++ L + +F+ Y +D+ + A + E+
Sbjct: 75 SKVGQFDQV------LNLCLT-------EFENCYLEGNDIHAL------AAKLLQ---EN 112
Query: 209 IGGLSKLKAEILSTFRG---VNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAV 265
L K K I + R K + L +AV +A+
Sbjct: 113 DTTLVKTKELIKNYITARIMAKRPFDKKSNSALF------------RAVGEG-NAQLVAI 159
Query: 266 KGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMD--RVV 323
G GQ N + +F+EL L + V D +
Sbjct: 160 FG--------GQG--NTDD-------------YFEELRDL-----YQTYHVLVGDLIKFS 191
Query: 324 SQLLAEM-DGVHTSQDVFILGATNRVDL---LDPAILRPGR--LDKSLY----VGLYEDR 373
++ L+E+ ++ VF G +++ L+ P + L +G+
Sbjct: 192 AETLSELIRTTLDAEKVFTQG----LNILEWLENPSNTPDKDYLLSIPISCPLIGVI--- 244
Query: 374 ISQLGVLKAVVRKFKLSDDVSLDSLVHHFPSQM----SGADIYSICSNAWTRAIRRIITS 429
QL + + P ++ GA + S ++T+
Sbjct: 245 --QLAHYVVTAKLLGFT------------PGELRSYLKGA---TGHSQG-------LVTA 280
Query: 430 APQVKSAPVIVTMDDFLGACSLATAPDKF-----SQSVAPDNYSLSVAPELL 476
+ + + F + A F P + S+ P +L
Sbjct: 281 VA-IAETD---SWESFFVSVRKAITV-LFFIGVRCYEAYP---NTSLPPSIL 324
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 42.1 bits (99), Expect = 2e-04
Identities = 24/106 (22%), Positives = 39/106 (36%), Gaps = 12/106 (11%)
Query: 226 VNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE--CRMNF--LAVKGPELLNKYIGQSEEN 281
V + ++ GL LYG G GK+ + A+A E + + P
Sbjct: 144 VEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAISNG 203
Query: 282 IRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLL 327
+ A P V+ D++ G E +S V D V+ +L
Sbjct: 204 SVKEEIDAVKNVP-VLILDDI-------GAEQATSWVRDEVLQVIL 241
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 38.7 bits (91), Expect = 3e-04
Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 11/64 (17%)
Query: 385 RKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDD 444
RK L+ ++L + P SGA++ +C+ A A+R V VT +D
Sbjct: 25 RKMNLTRGINLRKIAELMPG-ASGAEVKGVCTEAGMYALRE----------RRVHVTQED 73
Query: 445 FLGA 448
F A
Sbjct: 74 FEMA 77
>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.10A {Homo sapiens}
Length = 78
Score = 38.6 bits (91), Expect = 3e-04
Identities = 17/64 (26%), Positives = 27/64 (42%), Gaps = 11/64 (17%)
Query: 385 RKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPVIVTMDD 444
RK L+ ++L + P SGA++ +C+ A A+R VT +D
Sbjct: 17 RKMNLTRGINLRKIAELMPG-ASGAEVKGVCTEAGMYALRERRV----------HVTQED 65
Query: 445 FLGA 448
F A
Sbjct: 66 FEMA 69
>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP,
replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP:
a.80.1.1 c.37.1.20
Length = 327
Score = 41.6 bits (98), Expect = 3e-04
Identities = 24/79 (30%), Positives = 33/79 (41%), Gaps = 15/79 (18%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEEN----IRNV---FLKA 289
LL GPPG GKT A A+A E L + + S+E IR F +
Sbjct: 49 LLFAGPPGVGKTTAALALARE-----LFGENWRHNFLELNASDERGINVIREKVKEFART 103
Query: 290 RSAAPC---VVFFDELDSL 305
+ ++F DE D+L
Sbjct: 104 KPIGGASFKIIFLDEADAL 122
>2chq_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATP ATP-binding,
nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus
fulgidus} PDB: 2chv_A
Length = 319
Score = 41.5 bits (98), Expect = 3e-04
Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 25/84 (29%)
Query: 237 LLLYGPPGTGKTLIAKAVATE-----CRMNFLAVKGPELLNKYIGQSEEN----IRNV-- 285
LL GPPGTGKT A A+A + R NF+ + S+E +R+
Sbjct: 41 LLFSGPPGTGKTATAIALARDLFGENWRDNFI----------EMNASDERGIDVVRHKIK 90
Query: 286 -FLKARSAAPC---VVFFDELDSL 305
F + ++F DE D+L
Sbjct: 91 EFARTAPIGGAPFKIIFLDEADAL 114
>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 384
Score = 40.9 bits (95), Expect = 6e-04
Identities = 31/166 (18%), Positives = 57/166 (34%), Gaps = 48/166 (28%)
Query: 237 LLLYGPPGTGKTLIAKAVATECR-----------------------------MNFLAVKG 267
L G GTGKT ++K + E ++ LA K
Sbjct: 48 NLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKL 107
Query: 268 PELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLL 327
G + + +++ DE+D+L RRG D V+ QLL
Sbjct: 108 TGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGG--------DIVLYQLL 159
Query: 328 AEMDGVHTSQDVFILGATNRVDL---LDPAILRPGRLDKSLYVGLY 370
+ ++ ++ +N +++ ++P +L L S+ Y
Sbjct: 160 ------RSDANISVIMISNDINVRDYMEPRVL--SSLGPSVIFKPY 197
>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone,
chaperone-protein binding complex; HET: DNA; 3.80A
{Saccharomyces cerevisiae} PDB: 4a3v_B*
Length = 88
Score = 37.6 bits (88), Expect = 7e-04
Identities = 14/70 (20%), Positives = 28/70 (40%), Gaps = 11/70 (15%)
Query: 379 VLKAVVRKFKLSDDVSLDSLVHHFPSQMSGADIYSICSNAWTRAIRRIITSAPQVKSAPV 438
+ + + + + + + P+ +GA++ S+C+ A AIR
Sbjct: 9 IFRIHSKSMSVERGIRWELISRLCPN-STGAELRSVCTEAGMFAIRA----------RRK 57
Query: 439 IVTMDDFLGA 448
+ T DFL A
Sbjct: 58 VATEKDFLKA 67
>3ec2_A DNA replication protein DNAC; helicase loader, replication
initiation factor, ATP-binding, nucleotide-binding; HET:
DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*
Length = 180
Score = 39.7 bits (93), Expect = 7e-04
Identities = 20/81 (24%), Positives = 33/81 (40%), Gaps = 5/81 (6%)
Query: 226 VNRTSGLKRSGLLLYGPPGTGKT----LIAKAVATECRMNFLAVKGPELLNKYIGQSEEN 281
V+ + + GL G PG GKT KA+ + + +L+ + +E
Sbjct: 30 VHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRLKHLMDEG 89
Query: 282 IRNVFLKARSAAPCVVFFDEL 302
FLK +P +V D+L
Sbjct: 90 KDTKFLKTVLNSPVLV-LDDL 109
>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase,
nucleotide-binding, Pro serine protease, stress
response; HET: ADP; 3.40A {Bacillus subtilis} PDB:
1x37_A
Length = 543
Score = 39.8 bits (94), Expect = 0.002
Identities = 22/46 (47%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 211 GLSKLKAEILSTFRGV-NRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
GL K+K IL + V T LK L L GPPG GKT +AK++A
Sbjct: 85 GLEKVKERILE-YLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIA 129
>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide,
hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP:
a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*
Length = 324
Score = 38.7 bits (91), Expect = 0.003
Identities = 16/34 (47%), Positives = 21/34 (61%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL 270
LLL+GPPG GKT +A +A E +N GP +
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAI 74
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 39.0 bits (91), Expect = 0.003
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 237 LLLYGPPGTGKTLIAKAVA 255
+ L GPPG K+LIA+ +
Sbjct: 44 VFLLGPPGIAKSLIARRLK 62
>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian
virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A
2h1l_A
Length = 377
Score = 38.5 bits (89), Expect = 0.004
Identities = 22/80 (27%), Positives = 32/80 (40%), Gaps = 7/80 (8%)
Query: 233 KRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGP-ELLNKYIGQSEENIRNVFLKA-- 289
K+ L GP +GKT +A A+ C L V P + LN +G + + VF
Sbjct: 168 KKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKG 227
Query: 290 ----RSAAPCVVFFDELDSL 305
P + LD+L
Sbjct: 228 TGGESRDLPSGQGINNLDNL 247
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 38.3 bits (90), Expect = 0.004
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL 270
+L GP G GKT +A ++ E N P +
Sbjct: 58 ILFSGPAGLGKTTLANIISYEMSANIKTTAAPMI 91
>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase,
winged-helix domain, ATP hydrolysis, walker A, walker B,
sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga
maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A*
1in8_A* 1in7_A* 1j7k_A*
Length = 334
Score = 38.3 bits (90), Expect = 0.004
Identities = 16/34 (47%), Positives = 21/34 (61%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPEL 270
+LL GPPG GKT +A +A+E + N GP L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVL 87
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 38.3 bits (88), Expect = 0.005
Identities = 34/185 (18%), Positives = 60/185 (32%), Gaps = 44/185 (23%)
Query: 217 AEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATE--------------CRMNF 262
+ G K S LLYG GTGKT +A+ V +N
Sbjct: 29 RRLAEVLAPA--LRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNA 86
Query: 263 LAVKGPELLNKYIGQSEEN-------------IRNVFLKARSAAPCVVFFDELDSLAPRR 309
+ P + I ++ R V +R ++ DE+D L R
Sbjct: 87 RHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRP 146
Query: 310 GQEDQSSGVMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAILRPGRLDKSLYVGL 369
G +D ++ ++ + V ++G TN + ++ L+ + L
Sbjct: 147 GGQD--------LLYRITRINQELGDRVWVSLVGITNSLGFVE-------NLEPRVKSSL 191
Query: 370 YEDRI 374
E +
Sbjct: 192 GEVEL 196
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 38.3 bits (89), Expect = 0.007
Identities = 23/82 (28%), Positives = 33/82 (40%), Gaps = 11/82 (13%)
Query: 237 LLLYGPPGTGKTLIAKAVATE------CRMNFLAVKGPELLNKYIGQSEENIRNVFLKAR 290
L+L GPPG+GKT+ + +NF + PELL K E R +
Sbjct: 1307 LILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETV 1366
Query: 291 SAAP-----CVVFFDELDSLAP 307
VVF DE++ +
Sbjct: 1367 LRPTQLGKWLVVFCDEINLPST 1388
Score = 30.3 bits (68), Expect = 1.8
Identities = 17/74 (22%), Positives = 36/74 (48%), Gaps = 4/74 (5%)
Query: 226 VNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKY-IGQSEENIRN 284
++R + LL G G GK+++++ VA MN L++ ++ N Y ++++R
Sbjct: 1638 IDRVFRQPQGHALLIGVSGGGKSVLSRFVAW---MNGLSIYTIKVNNNYKSSDFDDDLRM 1694
Query: 285 VFLKARSAAPCVVF 298
+ +A + F
Sbjct: 1695 LLKRAGCKEEKICF 1708
>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA
translocation, nucleotide-binding, DNA-binding; 3.00A
{Bovine papillomavirus type 1} PDB: 2gxa_A*
Length = 305
Score = 37.2 bits (86), Expect = 0.008
Identities = 14/73 (19%), Positives = 29/73 (39%), Gaps = 10/73 (13%)
Query: 205 SWEDIGGLSKLK----AEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM 260
SW+ I + ++ + + K++ L GPP TGK+++ ++ +
Sbjct: 94 SWKSILTFFNYQNIELITFINALKLWLKGIP-KKNCLAFIGPPNTGKSMLCNSL-----I 147
Query: 261 NFLAVKGPELLNK 273
+FL N
Sbjct: 148 HFLGGSVLSFANH 160
>2r2a_A Uncharacterized protein; zonular occludens toxin, structural
genomics, APC84050.2, PS protein structure initiative;
HET: MSE; 1.82A {Neisseria meningitidis MC58}
Length = 199
Score = 36.2 bits (83), Expect = 0.013
Identities = 32/143 (22%), Positives = 48/143 (33%), Gaps = 32/143 (22%)
Query: 238 LLYGPPGTGKTLIA----------KAVATECRMNFLA-VKGPELLNKYIGQSEENIRNVF 286
L+ G PG+GKTL K R +KG ++ + YI + +
Sbjct: 9 LITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKST 68
Query: 287 LKARSAAP------------CVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGVH 334
+ SA +V DE + P S + + V Q L H
Sbjct: 69 DEQLSAHDMYEWIKKPENIGSIVIVDEAQDVWP---ARSAGSKIPENV--QWLNTHR--H 121
Query: 335 TSQDVFILGATNRVDLLDPAILR 357
D+F+L T LLD +
Sbjct: 122 QGIDIFVL--TQGPKLLDQNLRT 142
>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone,
hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*
Length = 310
Score = 36.5 bits (85), Expect = 0.013
Identities = 21/84 (25%), Positives = 37/84 (44%), Gaps = 7/84 (8%)
Query: 235 SGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELL-NKYIGQSEENIRNVFLKARSAA 293
+L+ GP G GKT IA+ +A F+ V+ + Y+G+ ++I + A
Sbjct: 51 KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGA 110
Query: 294 PC------VVFFDELDSLAPRRGQ 311
+VF DE+D + +
Sbjct: 111 IDAVEQNGIVFIDEIDKICKKGEY 134
>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural
genomics, PSI, protein struc initiative; 3.20A
{Agrobacterium tumefaciens str} SCOP: c.37.1.25
Length = 191
Score = 35.4 bits (81), Expect = 0.019
Identities = 15/42 (35%), Positives = 23/42 (54%)
Query: 226 VNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKG 267
+N T L + LLL G PG+GK+ IA+A+A + +
Sbjct: 1 MNMTDDLGGNILLLSGHPGSGKSTIAEALANLPGVPKVHFHS 42
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 36.2 bits (83), Expect = 0.022
Identities = 15/108 (13%), Positives = 34/108 (31%), Gaps = 29/108 (26%)
Query: 228 RTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNF---------------------LAVK 266
R R ++L G PG+GK+ IA+ + + V
Sbjct: 18 RIEDNYRVCVILVGSPGSGKSTIAEELCQIINEKYHTFLSEHPNVIEVNDRLKPMVNLVD 77
Query: 267 GPELLN--------KYIGQSEENIRNVFLKARSAAPCVVFFDELDSLA 306
+ L + G ++++ +V + + +E ++
Sbjct: 78 SLKTLQPNKVAEMIENQGLFKDHVEDVNFQPVKYSALTSNNEECTAVV 125
>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 323
Score = 35.8 bits (83), Expect = 0.025
Identities = 19/82 (23%), Positives = 33/82 (40%), Gaps = 20/82 (24%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKY--IGQSEEN----IRN---VFL 287
+++ G PG GKT +A E + G + + S++ +RN F
Sbjct: 45 MIISGMPGIGKTTSVHCLAHE-------LLGRSYADGVLELNASDDRGIDVVRNQIKHFA 97
Query: 288 KARSAAPC----VVFFDELDSL 305
+ + P +V DE DS+
Sbjct: 98 QKKLHLPPGKHKIVILDEADSM 119
>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins
(A/B), protein binding, transferase, phosphotransferase;
HET: ADP; 1.76A {Homo sapiens} PDB: 3iik_A 3iil_A*
3iim_A* 1rkb_A
Length = 180
Score = 35.0 bits (80), Expect = 0.025
Identities = 11/30 (36%), Positives = 19/30 (63%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVK 266
+LL G PG GKT + K +A++ + ++ V
Sbjct: 14 ILLTGTPGVGKTTLGKELASKSGLKYINVG 43
>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop,
rossman fold, AAA+, photosynthesis, metal transport;
2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB:
2x31_G
Length = 350
Score = 35.5 bits (82), Expect = 0.027
Identities = 9/20 (45%), Positives = 15/20 (75%)
Query: 236 GLLLYGPPGTGKTLIAKAVA 255
G+L++G GTGK+ +A+A
Sbjct: 47 GVLVFGDRGTGKSTAVRALA 66
>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase;
HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP:
c.37.1.20 PDB: 1s9h_A
Length = 267
Score = 35.3 bits (81), Expect = 0.028
Identities = 16/38 (42%), Positives = 21/38 (55%)
Query: 218 EILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
S F G KR+ + L+GP TGKT IA+A+A
Sbjct: 88 YAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIA 125
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 35.5 bits (82), Expect = 0.044
Identities = 23/109 (21%), Positives = 40/109 (36%), Gaps = 12/109 (11%)
Query: 207 EDIGGLSKLKAEILSTFRGVN--RTSGLKRSGLLLYGPPGTGKTLIAKAVATE------- 257
E+I KL +++ V +T+ ++ +LL G PGTGK+++ +A+A
Sbjct: 31 EEIEVPEKLIDQVIGQEHAVEVIKTAANQKRHVLLIGEPGTGKSMLGQAMAELLPTETLE 90
Query: 258 ---CRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFDELD 303
N P + Q + KA+S L
Sbjct: 91 DILVFPNPEDENMPRIKTVPACQGRRIVEKYREKAKSQESVKSSNMRLK 139
>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 340
Score = 34.7 bits (80), Expect = 0.057
Identities = 24/81 (29%), Positives = 34/81 (41%), Gaps = 19/81 (23%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKY--IGQSEEN----IRNV---FL 287
LL YGPPGTGKT A+A E + G N + S++ +RN F
Sbjct: 49 LLFYGPPGTGKTSTIVALARE-------IYGKNYSNMVLELNASDDRGIDVVRNQIKDFA 101
Query: 288 KARSAAPC---VVFFDELDSL 305
R ++ DE D++
Sbjct: 102 STRQIFSKGFKLIILDEADAM 122
>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate
hydrolases fold, S genomics, joint center for structural
genomics, JCSG; HET: MSE; 1.70A {Chloroflexus
aurantiacus}
Length = 193
Score = 33.8 bits (77), Expect = 0.072
Identities = 13/34 (38%), Positives = 22/34 (64%), Gaps = 1/34 (2%)
Query: 231 GLKRSGL-LLYGPPGTGKTLIAKAVATECRMNFL 263
G++ L ++ G P TGKT +++A+AT R+ L
Sbjct: 1 GMQTPALIIVTGHPATGKTTLSQALATGLRLPLL 34
>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp
loader, sliding clamp, primer-TEM DNA, DNA binding
protein-DNA complex; HET: DNA ADP 08T; 3.20A
{Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*
Length = 324
Score = 34.2 bits (79), Expect = 0.076
Identities = 24/105 (22%), Positives = 41/105 (39%), Gaps = 25/105 (23%)
Query: 218 EILSTFRGVNRTSGLKRSGLLLYGP-PGTGKTLIAKAVATECRMNFLAVKGPELLNKYIG 276
TF+ + + ++L+ P PGTGKT +AKA+ + + + ++
Sbjct: 33 FDKETFKSITSKGKIPH--IILHSPSPGTGKTTVAKALCHDVNADMM----------FVN 80
Query: 277 QSEENI---RN---VFLKARSAAPC----VVFFDELDSLAPRRGQ 311
S+ I R F A +A+ V+ DE D Q
Sbjct: 81 GSDCKIDFVRGPLTNF--ASAASFDGRQKVIVIDEFDRSGLAESQ 123
>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+
protein; 2.10A {Human papillomavirus type 18} SCOP:
c.37.1.20
Length = 212
Score = 33.2 bits (76), Expect = 0.10
Identities = 11/63 (17%), Positives = 23/63 (36%), Gaps = 10/63 (15%)
Query: 205 SWEDIGGLSKL----KAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRM 260
W I + L + + + K++ L+ GP TGK+ + +
Sbjct: 26 DWRPIVQFLRYQQIEFITFLGALKSFLKGTP-KKNCLVFCGPANTGKSYFGMSF-----I 79
Query: 261 NFL 263
+F+
Sbjct: 80 HFI 82
>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 353
Score = 32.9 bits (75), Expect = 0.19
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 237 LLLYGPPGTGKTLIAKAVATE 257
+L YGPPGTGKT A+ E
Sbjct: 61 MLFYGPPGTGKTSTILALTKE 81
>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase,
antibiotic resistance, phosphorylation, mononucleoti
binding fold; HET: ATP; 2.50A {Streptomyces venezuelae}
SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A*
1qhy_A*
Length = 178
Score = 32.0 bits (72), Expect = 0.20
Identities = 7/29 (24%), Positives = 14/29 (48%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAV 265
++L G GK+ I + + + +LA
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWLAF 34
>3hws_A ATP-dependent CLP protease ATP-binding subunit CL; CLPXP, AAA+
molecular machine, hexamer, asymmetric,, ATP-BIN
chaperone, metal-binding; HET: ADP; 3.25A {Escherichia
coli} PDB: 3hte_A
Length = 363
Score = 32.9 bits (76), Expect = 0.21
Identities = 13/24 (54%), Positives = 19/24 (79%)
Query: 232 LKRSGLLLYGPPGTGKTLIAKAVA 255
L +S +LL GP G+GKTL+A+ +A
Sbjct: 49 LGKSNILLIGPTGSGKTLLAETLA 72
>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding
loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori}
SCOP: c.37.1.20
Length = 376
Score = 33.0 bits (76), Expect = 0.22
Identities = 13/24 (54%), Positives = 19/24 (79%)
Query: 232 LKRSGLLLYGPPGTGKTLIAKAVA 255
L +S +LL GP G+GKTL+A+ +A
Sbjct: 70 LSKSNILLIGPTGSGKTLMAQTLA 93
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 33.3 bits (76), Expect = 0.23
Identities = 14/78 (17%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 226 VNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKY-IGQSEENIRN 284
++R + ++L G TGKT++ + VA +N L + P++ + + ++
Sbjct: 1601 IDRALKQVQGHMMLIGASRTGKTILTRFVAW---LNGLKIVQPKIHRHSNLSDFDMILKK 1657
Query: 285 VFLKA-RSAAPCVVFFDE 301
+ + DE
Sbjct: 1658 AISDCSLKESRTCLIIDE 1675
Score = 29.4 bits (66), Expect = 3.7
Identities = 17/77 (22%), Positives = 29/77 (37%), Gaps = 10/77 (12%)
Query: 237 LLLYGPPGTGKTLIAKAVATE------CRMNFLAVKGPELLNKYIGQSEENIR----NVF 286
++L GPPG+GKT+I +NF E + + + +
Sbjct: 1270 IILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTL 1329
Query: 287 LKARSAAPCVVFFDELD 303
L V+F DE++
Sbjct: 1330 LPKSDIKNLVLFCDEIN 1346
>1nlf_A Regulatory protein REPA; replicative DNA helicase structural
changes, replication; 1.95A {Escherichia coli} SCOP:
c.37.1.11 PDB: 1g8y_A 1olo_A
Length = 279
Score = 32.4 bits (73), Expect = 0.24
Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 5/31 (16%)
Query: 231 GLKRSGL-LLYGPPGTGKTL----IAKAVAT 256
+ + L P G GK++ +A +A
Sbjct: 26 NMVAGTVGALVSPGGAGKSMLALQLAAQIAG 56
>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A {Escherichia
coli K12} SCOP: a.80.1.1 c.37.1.20 PDB: 1jr3_E* 1xxh_E*
1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*
Length = 334
Score = 32.4 bits (74), Expect = 0.27
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 236 GLLLYGPPGTGKTLIAKAVA 255
LL+ PG G + A++
Sbjct: 26 ALLIQALPGMGDDALIYALS 45
>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics,
structural genomics consortium, SGC, unknown function;
1.70A {Plasmodium falciparum}
Length = 187
Score = 31.9 bits (73), Expect = 0.29
Identities = 27/102 (26%), Positives = 44/102 (43%), Gaps = 30/102 (29%)
Query: 239 LYGPPGTGKTLIAKAVATECRMNFLAVKG--PELLN----------------KYIGQSEE 280
L G PG GKT I + +A ++ V+G P+ L KY G EE
Sbjct: 48 LLGDPGVGKTAIVEGLAI--KI----VQGDVPDSLKGRKLVSLDLSSLIAGAKYRGDFEE 101
Query: 281 NIRNVFLK--ARSAAPCVVFFDELDSLAPRRGQEDQSSGVMD 320
++++ LK + V+F DE+ ++ G + G +D
Sbjct: 102 RLKSI-LKEVQDAEGQVVMFIDEIHTVV---GAGAVAEGALD 139
>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid
biosynthesis, P-loop kinase, metal- binding, shikimate
pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis}
SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A*
2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A*
1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A*
3baf_A*
Length = 184
Score = 31.8 bits (73), Expect = 0.30
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 239 LYGPPGTGKTLIAKAVATECRMNFL 263
L G PG+GK+ I + +A + L
Sbjct: 7 LVGLPGSGKSTIGRRLAKALGVGLL 31
>1y63_A LMAJ004144AAA protein; structural genomics, protein structure
initiative, PSI, SGPP structural genomics of pathogenic
protozoa consortium; HET: ADP; 1.70A {Leishmania major}
SCOP: c.37.1.1
Length = 184
Score = 31.6 bits (71), Expect = 0.33
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRM 260
+L+ G PGTGKT +A+ +A E
Sbjct: 13 ILITGTPGTGKTSMAEMIAAELDG 36
>2r44_A Uncharacterized protein; putative ATPase, structural genomics,
joint center for struc genomics, JCSG; HET: MSE PG4;
2.00A {Cytophaga hutchinsonii atcc 33406}
Length = 331
Score = 32.1 bits (74), Expect = 0.33
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNF 262
+LL G PG KTL +A ++F
Sbjct: 49 ILLEGVPGLAKTLSVNTLAKTMDLDF 74
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 32.2 bits (73), Expect = 0.40
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 238 LLYGPPGTGKTLIAKAVATE--CRMNFLAVKGPELLNKYIGQSEENIRN 284
L+ G PGTGKT IA +A F A+ G E+ + + ++E +
Sbjct: 74 LIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEALTQA 122
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A
{Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 31.4 bits (72), Expect = 0.41
Identities = 9/27 (33%), Positives = 18/27 (66%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFL 263
++ G G+GK+ +A+A+A + + FL
Sbjct: 7 IVFIGFMGSGKSTLARALAKDLDLVFL 33
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat
ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 31.7 bits (72), Expect = 0.45
Identities = 16/69 (23%), Positives = 29/69 (42%), Gaps = 10/69 (14%)
Query: 196 LDAPSVPNVSWEDIGGLSKLKA-EILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAV 254
L+ S+ + +++ + K KA E+ G + + L G G+GKT + K +
Sbjct: 18 LETGSLLHSPFDEEQQILKKKAEEVKPYLNGRS---------MYLVGMMGSGKTTVGKIM 68
Query: 255 ATECRMNFL 263
A F
Sbjct: 69 ARSLGYTFF 77
>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway,
P-loop protein, transferase; 1.8A {Erwinia chrysanthemi}
SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*
Length = 173
Score = 31.0 bits (71), Expect = 0.45
Identities = 6/25 (24%), Positives = 11/25 (44%)
Query: 239 LYGPPGTGKTLIAKAVATECRMNFL 263
+ G G G T + + +A F+
Sbjct: 7 MVGARGCGMTTVGRELARALGYEFV 31
>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta
protein., structural genomics, PSI-2, protein structure
initiative; HET: G3D; 2.20A {Bacillus subtilis} PDB:
2axp_A*
Length = 173
Score = 30.8 bits (70), Expect = 0.50
Identities = 5/23 (21%), Positives = 11/23 (47%)
Query: 241 GPPGTGKTLIAKAVATECRMNFL 263
GP K+ +A ++ E + +
Sbjct: 8 GPDCCFKSTVAAKLSKELKYPII 30
>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A
{Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A
3n2e_A*
Length = 168
Score = 31.0 bits (71), Expect = 0.50
Identities = 8/27 (29%), Positives = 16/27 (59%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFL 263
L+L G G+GK+ +A+ + ++ L
Sbjct: 10 LVLIGFMGSGKSSLAQELGLALKLEVL 36
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 30.6 bits (70), Expect = 0.59
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 238 LLYGPPGTGKTLIAKAV 254
LYG PGTG+ A+ +
Sbjct: 28 WLYGAPGTGRMTGARYL 44
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 30.6 bits (70), Expect = 0.71
Identities = 7/27 (25%), Positives = 11/27 (40%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFL 263
+ L G G GKT + +A +
Sbjct: 8 IYLIGLMGAGKTSVGSQLAKLTKRILY 34
>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI,
protein structure initiative; 2.05A {Escherichia coli}
SCOP: c.37.1.2
Length = 173
Score = 30.6 bits (70), Expect = 0.72
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFL 263
+ L GP G GK+ I + +A + M F
Sbjct: 7 IFLVGPMGAGKSTIGRQLAQQLNMEFY 33
>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein
struct initiative, northeast structural genomics
consortium, NESG, function; 2.40A {Bacillus halodurans}
SCOP: c.37.1.25
Length = 189
Score = 30.7 bits (69), Expect = 0.72
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 237 LLLYGPPGTGKTLIAKAVA 255
++ GP G GK+ K +A
Sbjct: 5 YIITGPAGVGKSTTCKRLA 23
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 30.3 bits (69), Expect = 0.74
Identities = 11/76 (14%), Positives = 26/76 (34%), Gaps = 13/76 (17%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCV 296
+ ++G G GK+ + +A + YI + + + +A
Sbjct: 39 IYVWGEEGAGKSHLLQAWVAQALEAGKNA-------AYIDAASMPLTDAAFEAE-----Y 86
Query: 297 VFFDELDSLAPRRGQE 312
+ D+++ L Q
Sbjct: 87 LAVDQVEKLGNEE-QA 101
>3io5_A Recombination and repair protein; storage dimer, inactive
conformation, RECA like core domain, binding, DNA
damage, DNA recombination; 2.40A {Enterobacteria phage
T4}
Length = 333
Score = 30.9 bits (70), Expect = 0.76
Identities = 21/150 (14%), Positives = 49/150 (32%), Gaps = 33/150 (22%)
Query: 225 GVNRTSGLKRSGLLLYGPPGTGKTLIAKAVATECRMNF---------------------L 263
T G++ L+L GP + K+ + + + +
Sbjct: 19 SGEITGGMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYDSEFGITPAYLRSM 78
Query: 264 AVKGPELLNKYIGQSEEN---IRNVFLKARSAAPCVVFFDELDSLAPRRGQE----DQSS 316
V +++ + E+ + N VVF D L +LA ++ E ++
Sbjct: 79 GVDPERVIHTPVQSLEQLRIDMVNQLDAIERGEKVVVFIDSLGNLASKKETEDALNEKVV 138
Query: 317 GVMD--RVVSQLLAEMDGVHTSQD---VFI 341
M + + L + ++++ + I
Sbjct: 139 SDMTRAKTMKSLFRIVTPYFSTKNIPCIAI 168
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 31.0 bits (70), Expect = 0.78
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 233 KRSGLLLYGPPGTGKTLIA 251
+ + +LL G GTGKT A
Sbjct: 29 EGTTVLLTGGTGTGKTTFA 47
>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure
initiative, midwest CENT structural genomics, MCSG;
2.79A {Clostridium symbiosum atcc 14940}
Length = 223
Score = 30.8 bits (69), Expect = 0.80
Identities = 14/99 (14%), Positives = 31/99 (31%), Gaps = 6/99 (6%)
Query: 241 GPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARS------AAP 294
G+G ++ K +A E ++F +L ++ E+ R KA +
Sbjct: 21 REYGSGGRIVGKKLAEELGIHFYDDDILKLASEKSAVGEQFFRLADEKAGNNLLYRLGGG 80
Query: 295 CVVFFDELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDGV 333
+ S + + V+ +L +
Sbjct: 81 RKIDLHSKPSPNDKLTSPENLFKFQSEVMRELAESEPCI 119
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 30.5 bits (68), Expect = 0.81
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKG 267
+ L GPPG GKT + + + + + V G
Sbjct: 4 VFLTGPPGVGKTTLIHKASEVLKSSGVPVDG 34
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 31.0 bits (70), Expect = 0.87
Identities = 8/19 (42%), Positives = 10/19 (52%)
Query: 233 KRSGLLLYGPPGTGKTLIA 251
L+ G GTGKTL +
Sbjct: 38 IGRSTLVSGTSGTGKTLFS 56
Score = 31.0 bits (70), Expect = 0.89
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 233 KRSGLLLYGPPGTGKTLIAKAVATE 257
K S +L G GTGKTL+
Sbjct: 280 KDSIILATGATGTGKTLLVSRFVEN 304
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 30.4 bits (69), Expect = 0.94
Identities = 11/22 (50%), Positives = 17/22 (77%), Gaps = 1/22 (4%)
Query: 231 GL-KRSGLLLYGPPGTGKTLIA 251
G+ +R+ +LL G PGTGKT+ +
Sbjct: 19 GIPERNVVLLSGGPGTGKTIFS 40
>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 354
Score = 31.0 bits (70), Expect = 0.94
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 237 LLLYGPPGTGKTLIAKAVATE 257
LLLYGP GTGK A+
Sbjct: 39 LLLYGPNGTGKKTRCMALLES 59
>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop
kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex
aeolicus}
Length = 168
Score = 30.2 bits (69), Expect = 0.97
Identities = 5/27 (18%), Positives = 12/27 (44%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFL 263
+ L G +GK+ + ++ + F
Sbjct: 3 IYLIGFMCSGKSTVGSLLSRSLNIPFY 29
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.9 bits (66), Expect = 1.1
Identities = 10/31 (32%), Positives = 13/31 (41%), Gaps = 13/31 (41%)
Query: 232 LKR--SGLLLYGP---PGTGKTLIAKAV-AT 256
LK+ + L LY P A A+ AT
Sbjct: 22 LKKLQASLKLYADDSAP-------ALAIKAT 45
Score = 28.8 bits (63), Expect = 2.4
Identities = 7/24 (29%), Positives = 10/24 (41%), Gaps = 8/24 (33%)
Query: 457 KFSQSV---APDNYSLSVAPELLV 477
K S+ A D+ AP L +
Sbjct: 24 KLQASLKLYADDS-----APALAI 42
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure
initiati YORK structural genomics research consortium,
nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 30.0 bits (67), Expect = 1.1
Identities = 8/27 (29%), Positives = 17/27 (62%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFL 263
+++ G G+GK+ + +A+A C F+
Sbjct: 21 IVVMGVSGSGKSSVGEAIAEACGYPFI 47
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 30.4 bits (69), Expect = 1.1
Identities = 9/22 (40%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 231 GL-KRSGLLLYGPPGTGKTLIA 251
G+ + + L G PGTGKT+ +
Sbjct: 19 GIPQGFFIALTGEPGTGKTIFS 40
>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR
complex, HMR, HML, TELO AAA+ domain, structural,
nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}
Length = 318
Score = 30.3 bits (67), Expect = 1.2
Identities = 3/21 (14%), Positives = 6/21 (28%)
Query: 237 LLLYGPPGTGKTLIAKAVATE 257
+ + K + V E
Sbjct: 48 FYITNADDSTKFQLVNDVMDE 68
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 30.3 bits (68), Expect = 1.4
Identities = 20/76 (26%), Positives = 35/76 (46%), Gaps = 7/76 (9%)
Query: 204 VSWEDIGGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKT-LIAKAVATECRMNF 262
VS + +++ KA+ + T GV + LL+ G GTGK+ L+ + T
Sbjct: 24 VSGGKLKRMTREKAKQV-TVAGVPMPRDAEPRHLLVNGATGTGKSVLLRELAYTGLLRGD 82
Query: 263 LAV----KGPELLNKY 274
V G ++L+K+
Sbjct: 83 RMVIVDPNG-DMLSKF 97
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
Length = 758
Score = 30.7 bits (70), Expect = 1.4
Identities = 21/83 (25%), Positives = 33/83 (39%), Gaps = 24/83 (28%)
Query: 238 LLYGPPGTGKTLIAKAVATECRMNFLAVKG--PELLN----------------KYIGQSE 279
LL G G GKT IA+ +A V+G PE++ KY G E
Sbjct: 211 LLVGESGVGKTAIAEGLAW------RIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFE 264
Query: 280 ENIRNVFLKARSAAPCVVFFDEL 302
+ + + + ++F DE+
Sbjct: 265 KRFKALLKQLEQDTNSILFIDEI 287
Score = 28.8 bits (65), Expect = 4.4
Identities = 10/32 (31%), Positives = 14/32 (43%), Gaps = 10/32 (31%)
Query: 234 RSGL----------LLYGPPGTGKTLIAKAVA 255
R+GL L GP G GKT + ++
Sbjct: 478 RAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLS 509
>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292;
mixed alpha-beta protein, rossman fold, signaling
protein, transferase; 1.40A {Aquifex aeolicus} SCOP:
c.37.1.11
Length = 178
Score = 28.8 bits (64), Expect = 2.4
Identities = 17/108 (15%), Positives = 35/108 (32%), Gaps = 7/108 (6%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCV 296
+++ G PG GKT + K + + E + E R F +
Sbjct: 3 IIITGEPGVGKTTLVKKIVERLGKRAIGFWTEE-----VRDPETKKRTGFRIITTEGKKK 57
Query: 297 VFFDELDSLAPRRGQEDQSSGVMDRVVSQLL--AEMDGVHTSQDVFIL 342
+F + + G + + + +L A + + V I+
Sbjct: 58 IFSSKFFTSKKLVGSYGVNVQYFEELAIPILERAYREAKKDRRKVIII 105
>3vaa_A Shikimate kinase, SK; structural genomics, center for structural
genomics of infec diseases, csgid, metal binding,
transferase; 1.70A {Bacteroides thetaiotaomicron}
Length = 199
Score = 29.1 bits (66), Expect = 2.5
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 239 LYGPPGTGKTLIAKAVATECRMNFL 263
L G G GKT + KA A + + F+
Sbjct: 30 LTGYMGAGKTTLGKAFARKLNVPFI 54
>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI, MCSG,
PRK04182 class ME structural genomics, protein structure
initiative; 2.20A {Eubacterium ventriosum}
Length = 201
Score = 28.9 bits (64), Expect = 2.9
Identities = 13/92 (14%), Positives = 29/92 (31%), Gaps = 5/92 (5%)
Query: 241 GPPGTGKTLIAKAVATECRMNFLAVKGPELLNKYIGQSEENIRNVFLKARSAAPCVVFFD 300
G+G L+AK +A + + + + + K S+E + K + F
Sbjct: 13 REFGSGGHLVAKKLAEHYNIPLYSKELLDEVAKDGRYSKEVLERFDEKPMN-----FAFI 67
Query: 301 ELDSLAPRRGQEDQSSGVMDRVVSQLLAEMDG 332
+ + E + + + E
Sbjct: 68 PVPAGGTTISLEQDIAIRQFNFIRKKANEEKE 99
>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A
{Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A
1ko5_A* 1ko8_A* 1kof_A*
Length = 175
Score = 28.8 bits (64), Expect = 2.9
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 237 LLLYGPPGTGKTLIAKAVATECRMNFL 263
+L G G+GK+ +A VA + FL
Sbjct: 11 YVLMGVSGSGKSAVASEVAHQLHAAFL 37
>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli}
SCOP: c.37.1.20
Length = 195
Score = 28.8 bits (65), Expect = 3.2
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 27/87 (31%)
Query: 239 LYGPPGTGKTLIAKAVATECRMNFLAVKG--PELLN----------------KYIGQSEE 280
L G PG GKT I + +A R+ + G PE L KY G+ EE
Sbjct: 48 LIGEPGVGKTAIVEGLAQ--RI----INGEVPEGLKGRRVLALDMGALVAGAKYRGEFEE 101
Query: 281 NIRNVFLK--ARSAAPCVVFFDELDSL 305
++ V L A+ ++F DEL ++
Sbjct: 102 RLKGV-LNDLAKQEGNVILFIDELHTM 127
>3co5_A Putative two-component system transcriptional RES regulator;
structural genomics, APC89341.1; 2.40A {Neisseria
gonorrhoeae}
Length = 143
Score = 28.3 bits (64), Expect = 3.5
Identities = 4/18 (22%), Positives = 8/18 (44%)
Query: 237 LLLYGPPGTGKTLIAKAV 254
+ L G G+ +A+
Sbjct: 30 VFLTGEAGSPFETVARYF 47
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain,
PIN-tower interface, coupling hydrolysis to DNA
unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Length = 459
Score = 28.8 bits (64), Expect = 3.9
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 233 KRSGLLLYGPPGTGKTLIAKAV 254
K+ + + GP GTG T + K +
Sbjct: 44 KKHHVTINGPAGTGATTLTKFI 65
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 28.7 bits (65), Expect = 4.6
Identities = 22/75 (29%), Positives = 35/75 (46%), Gaps = 19/75 (25%)
Query: 239 LYGPPGTGKTLIAKAVATECRMNFLAVKG--PELLN-----------KYIGQSEENIRNV 285
L G PG GKT IA+ +A ++ + PE+L KY G+ E+ ++ V
Sbjct: 206 LIGEPGVGKTAIAEGLAQ--QI----INNEVPEILRDKRVMTLDMGTKYRGEFEDRLKKV 259
Query: 286 FLKARSAAPCVVFFD 300
+ R A ++F D
Sbjct: 260 MDEIRQAGNIILFID 274
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 28.7 bits (65), Expect = 4.7
Identities = 22/76 (28%), Positives = 36/76 (47%), Gaps = 19/76 (25%)
Query: 238 LLYGPPGTGKTLIAKAVATECRMNFLAVKG--PELLN-----------KYIGQSEENIRN 284
+L G PG GKT IA+ +A ++ + PE+L KY G+ E+ ++
Sbjct: 205 VLIGEPGVGKTAIAEGLAQ--QI----INNEVPEILRDKRVMTLDMGTKYRGEFEDRLKK 258
Query: 285 VFLKARSAAPCVVFFD 300
V + R A ++F D
Sbjct: 259 VMDEIRQAGNIILFID 274
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 28.7 bits (64), Expect = 4.9
Identities = 10/40 (25%), Positives = 15/40 (37%), Gaps = 2/40 (5%)
Query: 216 KAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLIAKAVA 255
K L F V + S R +LL G P ++ +
Sbjct: 223 KMLALQLFSCVGKNSE--RLHVLLAGYPVVCSEILHHVLD 260
>3oxn_A Putative transcriptional regulator, LYSR family; structural
genomics, PSI-2, protein structure initiative; 2.70A
{Vibrio parahaemolyticus}
Length = 241
Score = 28.0 bits (63), Expect = 5.2
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 6/50 (12%)
Query: 424 RRIITSAPQVKSAPVIVTMDDFLGACSLATAPDKFSQSVAPDNYSLSVAP 473
R+++ A +++A IV + T P + VA + Y L V P
Sbjct: 141 RKMVLRAYHLEAALAIVDTLPI-----IITVPADLAYLVA-ERYDLVVKP 184
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 28.0 bits (62), Expect = 5.2
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 237 LLLYGPPGTGKTLIAKAVA 255
+ + GP G GKT A +
Sbjct: 8 IWINGPFGVGKTHTAHTLH 26
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein
transport, biosynthetic protein; HET: GNP; 3.00A
{Bacillus subtilis} PDB: 2px3_A* 3syn_A*
Length = 296
Score = 28.1 bits (63), Expect = 6.1
Identities = 18/99 (18%), Positives = 34/99 (34%), Gaps = 11/99 (11%)
Query: 165 KMLKQGINKRDLQKEDFQQIYDDLQS---------RYSDQLDAPSVPNVSWEDIGGLSKL 215
+ L + + E ++ LQ +L SV + + KL
Sbjct: 26 QELGDFSAYQSVLPEPLRKAEKLLQETGIKESTKTNTLKKLLRFSVEAGGLTEENVVGKL 85
Query: 216 KAEILSTFRGVNRTSGLKRSG-LLLYGPPGTGK-TLIAK 252
+ + ++ S ++L+G G GK T +AK
Sbjct: 86 QEILCDMLPSADKWQEPIHSKYIVLFGSTGAGKTTTLAK 124
>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54
activator, bacterial transcription, DIM transcription;
HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1
c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*
Length = 387
Score = 28.2 bits (64), Expect = 6.5
Identities = 6/17 (35%), Positives = 11/17 (64%)
Query: 238 LLYGPPGTGKTLIAKAV 254
L+ G G GK ++A+ +
Sbjct: 164 LITGESGVGKEVVARLI 180
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 28.4 bits (63), Expect = 6.7
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 230 SGLKRSGLLLYGPPGTGKTLIAKAVATECRMNF 262
L+R L+ GPPGTGKT+ + +
Sbjct: 371 HVLQRPLSLIQGPPGTGKTVTSATIVYHLSKIH 403
>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two
component system, AAA domain, NTRC family, DNA-binding;
HET: ATP; 3.0A {Salmonella typhimurium}
Length = 304
Score = 28.2 bits (64), Expect = 6.7
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 238 LLYGPPGTGKTLIAKAV 254
L++G GTGK L+A+A+
Sbjct: 29 LIHGDSGTGKELVARAL 45
>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein
transport, G protein, proline isomerization, circular
permutation; 2.20A {Saccharomyces cerevisiae}
Length = 193
Score = 27.8 bits (62), Expect = 7.1
Identities = 9/41 (21%), Positives = 19/41 (46%)
Query: 210 GGLSKLKAEILSTFRGVNRTSGLKRSGLLLYGPPGTGKTLI 250
+S+ + I G + G + +++ GP +GKT +
Sbjct: 24 RKISQWREWIDEKLGGGSGGGGSYQPSIIIAGPQNSGKTSL 64
>1fs0_G ATP synthase gamma subunit; coiled coil, epsilon, hydrolase; 2.10A
{Escherichia coli} SCOP: c.49.2.1
Length = 230
Score = 27.5 bits (62), Expect = 7.7
Identities = 13/57 (22%), Positives = 29/57 (50%), Gaps = 4/57 (7%)
Query: 6 SFHNRINEDILSHLLTNYFATPRYHHLNDIVKINLKKYNLDIFKYDEVNYLCNVKYV 62
SF N + ++++ + T P L VK+ L+ Y+ + D++ Y+ + K++
Sbjct: 106 SFFNSVGGNVVAQV-TGMGDNPSLSELIGPVKVMLQAYDEG--RLDKL-YIVSNKFI 158
>2bjv_A PSP operon transcriptional activator; AAA, transcription
activation, gene regulation, sigma54 activator, enhancer
binding protein, PSPF; 1.7A {Escherichia coli} PDB:
2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*
Length = 265
Score = 27.9 bits (63), Expect = 7.9
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 238 LLYGPPGTGKTLIAKAV 254
L+ G GTGK LIA +
Sbjct: 33 LIIGERGTGKELIASRL 49
>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+
ATPase, response regulator, transcriptional activator,
ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB:
1zit_A 2jrl_A
Length = 368
Score = 27.8 bits (63), Expect = 9.3
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 238 LLYGPPGTGKTLIAKAV 254
L+ G GTGK ++A+ +
Sbjct: 156 LITGESGTGKEIVARLI 172
>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM:
PF02562, ST genomics, PSI-2, protein structure
initiative; 2.35A {Corynebacterium glutamicum atcc
13032}
Length = 208
Score = 27.2 bits (61), Expect = 9.3
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 241 GPPGTGKTLIAKAVA 255
GP G+GKT +A A A
Sbjct: 29 GPAGSGKTYLAMAKA 43
>2cev_A Protein (arginase); enzyme, hydrolase, arginine hydrolysis,
nitrogen metabolism, manganese metalloenzyme; 2.15A
{Bacillus caldovelox} SCOP: c.42.1.1 PDB: 1cev_A 3cev_A*
4cev_A 5cev_A*
Length = 299
Score = 27.6 bits (62), Expect = 9.6
Identities = 13/38 (34%), Positives = 18/38 (47%), Gaps = 9/38 (23%)
Query: 318 VMDRVVSQLLAEMDGVHTSQDVFILGATNRVDLLDPAI 355
VM+ ++ L DGVH S D +D LDP+
Sbjct: 206 VMEETIAYLKERTDGVHLSLD---------LDGLDPSD 234
>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding
protein, ring protein, octamer, AAA ATPase; 3.20A {Homo
sapiens} SCOP: c.37.1.11 PDB: 2zjb_A
Length = 343
Score = 27.5 bits (61), Expect = 9.7
Identities = 5/20 (25%), Positives = 9/20 (45%)
Query: 239 LYGPPGTGKTLIAKAVATEC 258
+G TGKT ++ +
Sbjct: 127 AFGEFRTGKTQLSHTLCVTA 146
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.320 0.136 0.392
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,124,597
Number of extensions: 429224
Number of successful extensions: 1151
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1049
Number of HSP's successfully gapped: 166
Length of query: 478
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 381
Effective length of database: 3,993,456
Effective search space: 1521506736
Effective search space used: 1521506736
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.4 bits)