RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11254
(741 letters)
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 465 bits (1199), Expect = e-161
Identities = 139/301 (46%), Positives = 193/301 (64%), Gaps = 38/301 (12%)
Query: 157 VYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGT 216
M ++ ++ Y IGGL +Q++E+REV+ELPL +PELF++VGI PPKG LLYGPPGT
Sbjct: 3 AKAMEVDERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGT 62
Query: 217 GKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAI 276
GKTLLA+AVA++ +A F++VV S +
Sbjct: 63 GKTLLAKAVATETNATFIRVVGS-----------------------------------EL 87
Query: 277 VDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ 336
V K+IGE A L++++F A+ P IIF+DEIDAI +R T DRE+QRTLM+LL +
Sbjct: 88 VKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAE 147
Query: 337 MDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPI 396
MDGFD+ G VK+I ATNRPD LDPA+LRPGR DR IE+P P+E+ RL + IH +
Sbjct: 148 MDGFDARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLE---ILKIHTRKM 204
Query: 397 AKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKL 456
+++ E + K+++ GA+L+ +CTEAG+ AIR R+YVT +DF KAV K+ + KK+
Sbjct: 205 NLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRELRDYVTMDDFRKAVEKIMEKKKV 264
Query: 457 D 457
Sbjct: 265 K 265
Score = 369 bits (950), Expect = e-123
Identities = 108/179 (60%), Positives = 139/179 (77%)
Query: 505 VIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKY 564
V+ELPL +PELF++VGI PPKG LLYGPPGTGKTLLA+AVA++ +A F++VV S +V K+
Sbjct: 32 VVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKF 91
Query: 565 IGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGF 624
IGE A L++++F A+ P IIF+DEIDAI +R T DRE+QRTLM+LL +MDGF
Sbjct: 92 IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGF 151
Query: 625 DSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAGPIAKHGEI 683
D+ G VK+I ATNRPD LDPA+LRPGR DR IE+P P+E+ RLEILKIH + ++
Sbjct: 152 DARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDV 210
>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 = 476 bits (1228), Expect = e-158
Identities = 189/559 (33%), Positives = 287/559 (51%), Gaps = 86/559 (15%)
Query: 152 EVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLY 211
E +P+ E ++ Y +GG +Q+ +++E++ELPL +P LF+ +G+ PP+G LLY
Sbjct: 185 EGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLY 244
Query: 212 GPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPF 271
GPPGTGKTL+ARAVA++ A F +
Sbjct: 245 GPPGTGKTLIARAVANETGAFFFLI----------------------------------- 269
Query: 272 YSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLM 331
I+ K GES +R+ F A + P IIF+DE+DAI +R E T + E +R +
Sbjct: 270 NGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR--EKTHGEVE-RRIVS 326
Query: 332 ELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPI-S 390
+LL MDG V ++ ATNRP+++DPAL R GR DR+++I +P+ RL I
Sbjct: 327 QLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLE----ILQ 382
Query: 391 IHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
IH + ++D E V + GADL +C+EA L AIR +K+
Sbjct: 383 IHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIR---------------KKM 427
Query: 451 SDNKKLDHCNSYRTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLESKLDYKPV----- 505
D L VT +DF A+ + + + E+ ++ V
Sbjct: 428 DLIDLEDETIDAEVMNSLA--------VTMDDFRWALSQSNPSALRETVVEVPQVTWEDI 479
Query: 506 -------------IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANF 552
++ P+ +P+ F + G+TP KG L YGPPG GKTLLA+A+A++ ANF
Sbjct: 480 GGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF 539
Query: 553 LKVVSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQR 612
+ + ++ + GES +RE+F+ AR PC++F DE+D+I R R
Sbjct: 540 ISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADR 599
Query: 613 TLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKI 672
+ ++L +MDG + V +I ATNRPD +DPA+LRPGRLD+ I IPLP+E++R+ ILK
Sbjct: 600 VINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKA 659
Query: 673 HAG--PIAKHGEIGDAATK 689
+ P+AK ++ A
Sbjct: 660 NLRKSPVAKDVDLEFLAKM 678
Score = 297 bits (762), Expect = 1e-89
Identities = 114/429 (26%), Positives = 188/429 (43%), Gaps = 66/429 (15%)
Query: 121 CRRQLDKAKLKSGTRVALDMTTLTI----MRYLPREVDPLVYNMSHEDPGDITYSAIGGL 176
R+++D L+ T A M +L + R+ + +P + + +T+ IGGL
Sbjct: 423 IRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGL 482
Query: 177 SEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKV 236
+ REL+E+++ P+ +P+ F + G+TP KG L YGPPG GKTLLA+A+A++ ANF+ +
Sbjct: 483 EDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISI 542
Query: 237 VSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYAR 296
++ + GES +RE+F+ AR
Sbjct: 543 -----------------------------------KGPELLTMWFGESEANVREIFDKAR 567
Query: 297 NHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPD 356
PC++F DE+D+I R R + ++L +MDG + V +I ATNRPD
Sbjct: 568 QAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPD 627
Query: 357 TLDPALLRPGRLDRKIEIPLPNEQARLAHTWPI-SIHAGPIAKHGEIDYEAVVKLSDSFN 415
+DPA+LRPGRLD+ I IPLP+E++R+A I + ++D E + K+++ F+
Sbjct: 628 IIDPAILRPGRLDQLIYIPLPDEKSRVA----ILKANLRKSPVAKDVDLEFLAKMTNGFS 683
Query: 416 GADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHCNSYRTEAGLFAIRSER 475
GADL +C A AIR + + + A
Sbjct: 684 GADLTEICQRACKLAIR---------------ESIESEIRRERERQTNPSAMEVEEDDPV 728
Query: 476 EYVTQEDFMKAVRKV------SDNKKLES-KLDYKPVIELPLLNPELFQRVGITPPKGCL 528
+ ++ F +A+R +D +K E + + G P +G
Sbjct: 729 PEIRRDHFEEAMRFARRSVSDNDIRKYEMFAQTLQQSRGFGSFRFPSGNQGGAGPSQGSG 788
Query: 529 LYGPPGTGK 537
Sbjct: 789 GGTGGSVYT 797
>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 = 298 bits (764), Expect = 4e-93
Identities = 107/327 (32%), Positives = 161/327 (49%), Gaps = 60/327 (18%)
Query: 142 TLTIMRYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVG 201
+ + E +P+ E ++ Y IGG +Q+ +++E++ELPL +P LF+ +G
Sbjct: 175 IVAPDTVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIG 234
Query: 202 ITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRST 261
+ PP+G LLYGPPGTGKTL+ARAVA++ A F +
Sbjct: 235 VKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGP---------------------- 272
Query: 262 HHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTS 321
I+ K GES +R+ F A + P IIF+DE+DAI +R E T
Sbjct: 273 -------------EIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR--EKTH 317
Query: 322 ADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQA 381
+ E +R + +LL MDG V ++ ATNRP+++DPAL R GR DR+++I +P+
Sbjct: 318 GEVE-RRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG 376
Query: 382 RLAHTWPI-SIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREY--- 437
RL I IH + ++D E V + GADL +C+EA L AIR + +
Sbjct: 377 RLE----ILQIHTKNMKLADDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDL 432
Query: 438 --------------VTQEDFMKAVRKV 450
VT +DF A+ +
Sbjct: 433 EDETIDAEVMNSLAVTMDDFRWALSQS 459
Score = 256 bits (656), Expect = 2e-77
Identities = 81/168 (48%), Positives = 113/168 (67%), Gaps = 3/168 (1%)
Query: 506 IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYI 565
+ELPL +P LF+ +G+ PP+G LLYGPPGTGKTL+ARAVA++ A F + I+ K
Sbjct: 220 VELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLA 279
Query: 566 GESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFD 625
GES +R+ F A + P IIF+DE+DAI +R E T + E +R + +LL MDG
Sbjct: 280 GESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR--EKTHGEVE-RRIVSQLLTLMDGLK 336
Query: 626 SLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
V ++ ATNRP+++DPAL R GR DR+++I +P+ RLEIL+IH
Sbjct: 337 QRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIH 384
>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 = 274 bits (702), Expect = 1e-86
Identities = 102/325 (31%), Positives = 160/325 (49%), Gaps = 55/325 (16%)
Query: 167 DITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 226
+T+ IGGL + REL+E+++ P+ +P+ F + G+TP KG L YGPPG GKTLLA+A+A
Sbjct: 11 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIA 70
Query: 227 SQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESAR 286
++ ANF+ + K G +L + + GES
Sbjct: 71 NECQANFISI--------K-------GPEL--------------------LTMWFGESEA 95
Query: 287 LIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQV 346
+RE+F+ AR PC++F DE+D+I R R + ++L +MDG + V
Sbjct: 96 NVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNV 155
Query: 347 KMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPI-SIHAGPIAKHGEIDYE 405
+I ATNRPD +DPA+LRPGRLD+ I IPLP+E++R+A I + ++D E
Sbjct: 156 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVA----ILKANLRKSPVAKDVDLE 211
Query: 406 AVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHCNSYRTE 465
+ K+++ F+GADL +C A AIR + + +
Sbjct: 212 FLAKMTNGFSGADLTEICQRACKLAIR---------------ESIESEIRRERERQTNPS 256
Query: 466 AGLFAIRSEREYVTQEDFMKAVRKV 490
A + ++ F +A+R
Sbjct: 257 AMEVEEDDPVPEIRRDHFEEAMRFA 281
Score = 247 bits (633), Expect = 2e-76
Identities = 74/168 (44%), Positives = 111/168 (66%)
Query: 506 IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYI 565
++ P+ +P+ F + G+TP KG L YGPPG GKTLLA+A+A++ ANF+ + ++ +
Sbjct: 31 VQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWF 90
Query: 566 GESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFD 625
GES +RE+F+ AR PC++F DE+D+I R R + ++L +MDG
Sbjct: 91 GESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMS 150
Query: 626 SLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
+ V +I ATNRPD +DPA+LRPGRLD+ I IPLP+E++R+ ILK +
Sbjct: 151 TKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKAN 198
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 273 bits (699), Expect = 3e-86
Identities = 53/295 (17%), Positives = 103/295 (34%), Gaps = 64/295 (21%)
Query: 173 IGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDAN 232
+ G + +++ N + I P ++G G GK+ V ++ N
Sbjct: 6 LDGFYIAPAFMDKLVVHITKN--FLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGIN 63
Query: 233 FLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMF 292
+ + + + GE A+LIR+ +
Sbjct: 64 PIMMSAG-----------------------------------ELESGNAGEPAKLIRQRY 88
Query: 293 NYA----RNHQPCIIFMDEIDAIGGRR--FSEGTSADREIQRTLMELLN-----QMDGFD 341
A R C +F++++DA GR ++ T ++ + TLM + + Q+ G
Sbjct: 89 REAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMY 148
Query: 342 ---SLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAK 398
+V +I+ N TL L+R GR+++ P ++ + I +
Sbjct: 149 NKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTREDRIGVCTG---------IFR 199
Query: 399 HGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDN 453
+ E VVK+ D+F G + G R + V + + K+ D
Sbjct: 200 TDNVPAEDVVKIVDNFPGQSIDFF----GALRARVYDDEVRKWVSGTGIEKIGDK 250
Score = 242 bits (619), Expect = 1e-74
Identities = 40/183 (21%), Positives = 79/183 (43%), Gaps = 17/183 (9%)
Query: 506 IELPLLNPE-LFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKY 564
+L + + + I P ++G G GK+ V ++ N + + + +
Sbjct: 17 DKLVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGN 76
Query: 565 IGESARLIREMFNYA----RNHQPCIIFMDEIDAIGGRR--FSEGTSADREIQRTLMELL 618
GE A+LIR+ + A R C +F++++DA GR ++ T ++ + TLM +
Sbjct: 77 AGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIA 136
Query: 619 N-----QMDGFD---SLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEIL 670
+ Q+ G +V +I+ N TL L+R GR+++ P + R+ +
Sbjct: 137 DNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTRED--RIGVC 194
Query: 671 KIH 673
Sbjct: 195 TGI 197
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 271 bits (695), Expect = 6e-86
Identities = 99/299 (33%), Positives = 148/299 (49%), Gaps = 55/299 (18%)
Query: 167 DITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 226
++T++ IG L + EL I P+ NP+ F+ +G+ P G LL GPPG GKTLLA+AVA
Sbjct: 6 NVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVA 65
Query: 227 SQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESAR 286
++ NF+ V K +++ Y+GES R
Sbjct: 66 NESGLNFISV-----------------------------K------GPELLNMYVGESER 90
Query: 287 LIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQV 346
+R++F A+N PC+IF DE+DA+ RR T A R + +LL +MDG ++ QV
Sbjct: 91 AVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGA---SVRVVNQLLTEMDGLEARQQV 147
Query: 347 KMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARL----AHTWPISIHAGPIAKHGEI 402
++ ATNRPD +DPA+LRPGRLD+ + + LP RL T + P+ +
Sbjct: 148 FIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTIT--KNGTKPPLDADVNL 205
Query: 403 DYEAVVKLSDSFNGADLRNVCTEAGLFAIR-----------SEREYVTQEDFMKAVRKV 450
+ A D + GADL + EA + A+R V+ + F +A +KV
Sbjct: 206 EAIAGDLRCDCYTGADLSALVREASICALRQEMARQKSGNEKGELKVSHKHFEEAFKKV 264
Score = 247 bits (633), Expect = 9e-77
Identities = 79/174 (45%), Positives = 111/174 (63%), Gaps = 3/174 (1%)
Query: 506 IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYI 565
I P+ NP+ F+ +G+ P G LL GPPG GKTLLA+AVA++ NF+ V +++ Y+
Sbjct: 26 ILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYV 85
Query: 566 GESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFD 625
GES R +R++F A+N PC+IF DE+DA+ RR T A R + +LL +MDG +
Sbjct: 86 GESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGA---SVRVVNQLLTEMDGLE 142
Query: 626 SLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAGPIAK 679
+ QV ++ ATNRPD +DPA+LRPGRLD+ + + LP RL ILK K
Sbjct: 143 ARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTK 196
>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 = 243 bits (623), Expect = 9e-75
Identities = 97/337 (28%), Positives = 158/337 (46%), Gaps = 58/337 (17%)
Query: 163 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 222
E P ++ + + GL L+E + LP+ P LF+ P G LLYGPPGTGK+ LA
Sbjct: 11 EKP-NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLA 68
Query: 223 RAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIG 282
+AVA++ ++ F V SS +V K++G
Sbjct: 69 KAVATEANSTFFSVSSS-----------------------------------DLVSKWMG 93
Query: 283 ESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGF-D 341
ES +L++++F AR ++P IIF+D++DA+ G R + A R R ELL QM+G +
Sbjct: 94 ESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASR---RIKTELLVQMNGVGN 150
Query: 342 SLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKH-- 399
V ++ ATN P LD A+ R R +R+I IPLP+ AR I+ G
Sbjct: 151 DSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTM---FEINVGDT-PCVL 204
Query: 400 GEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHC 459
+ DY + +++ ++G+D+ V +A + I R+ + F + + +KL C
Sbjct: 205 TKEDYRTLGAMTEGYSGSDIAVVVKDALMQPI---RKIQSATHFKDVSTEDDETRKLTPC 261
Query: 460 NSYRTEAGLFAIRSERE------YVTQEDFMKAVRKV 490
+ A + +T +DF+KA++
Sbjct: 262 SPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKST 298
Score = 216 bits (551), Expect = 2e-64
Identities = 73/171 (42%), Positives = 108/171 (63%), Gaps = 7/171 (4%)
Query: 506 IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYI 565
+ LP+ P LF+ P G LLYGPPGTGK+ LA+AVA++ ++ F V SS +V K++
Sbjct: 34 VILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWM 92
Query: 566 GESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGF- 624
GES +L++++F AR ++P IIF+D++DA+ G R + A R R ELL QM+G
Sbjct: 93 GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASR---RIKTELLVQMNGVG 149
Query: 625 DSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAG 675
+ V ++ ATN P LD A+ R R +R+I IPLP+ AR + +I+ G
Sbjct: 150 NDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVG 198
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 237 bits (608), Expect = 8e-73
Identities = 87/305 (28%), Positives = 139/305 (45%), Gaps = 61/305 (20%)
Query: 163 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 222
+ ++ I G + L+E++ LP + PELF + P KG LL+GPPG GKTLLA
Sbjct: 14 GGA-KVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLA 71
Query: 223 RAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIG 282
RAVA++ A FL + ++++ KY+G
Sbjct: 72 RAVATECSATFLNI-----------------------------------SAASLTSKYVG 96
Query: 283 ESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDS 342
+ +L+R +F AR+ QP IIF+DE+D++ R S A R R E L + DG
Sbjct: 97 DGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASR---RLKTEFLVEFDGLPG 153
Query: 343 LGQVKMIM---ATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKH 399
I+ ATNRP LD A LR R +++ + LP+EQ R ++
Sbjct: 154 NPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELL---LNRLLQKQGSP 208
Query: 400 -GEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIR------------SEREYVTQEDFMKA 446
+ K++D ++G+DL + +A L IR S +T++DF +
Sbjct: 209 LDTEALRRLAKITDGYSGSDLTALAKDAALEPIRELNVEQVKCLDISAMRAITEQDFHSS 268
Query: 447 VRKVS 451
++++
Sbjct: 269 LKRIR 273
Score = 214 bits (546), Expect = 7e-64
Identities = 71/171 (41%), Positives = 100/171 (58%), Gaps = 9/171 (5%)
Query: 506 IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYI 565
+ LP + PELF + P KG LL+GPPG GKTLLARAVA++ A FL + ++++ KY+
Sbjct: 37 VILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYV 95
Query: 566 GESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFD 625
G+ +L+R +F AR+ QP IIF+DE+D++ R S A R R E L + DG
Sbjct: 96 GDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSSSEHEASR---RLKTEFLVEFDGLP 152
Query: 626 SLGQVKMIM---ATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
I+ ATNRP LD A LR R +++ + LP+EQ R +L
Sbjct: 153 GNPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRL 201
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 236 bits (604), Expect = 5e-72
Identities = 93/341 (27%), Positives = 154/341 (45%), Gaps = 59/341 (17%)
Query: 163 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 222
E P ++ +S + GL L+E + LP+ P LF TP +G LL+GPPGTGK+ LA
Sbjct: 5 ERP-NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLA 62
Query: 223 RAVASQLD-ANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYI 281
+AVA++ + + F + SS +V K++
Sbjct: 63 KAVATEANNSTFFSISSS-----------------------------------DLVSKWL 87
Query: 282 GESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFD 341
GES +L++ +F AR ++P IIF+DEID++ G R + A R R E L QM G
Sbjct: 88 GESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---RIKTEFLVQMQGVG 144
Query: 342 SLGQ-VKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHG 400
+ ++ ATN P LD A+ R R +++I IPLP AR A +H G ++
Sbjct: 145 VDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAM---FKLHLGTT-QNS 198
Query: 401 --EIDYEAVVKLSDSFNGADLRNVCTEAGLFAIR---SEREYVTQEDFMKAVRKVSDNKK 455
E D+ + + +D ++GAD+ + +A + +R S + +A +
Sbjct: 199 LTEADFRELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPNHLVDDL 258
Query: 456 LDHCNSYRTEA------GLFAIRSEREYVTQEDFMKAVRKV 490
L C+ A + + V+ D ++++
Sbjct: 259 LTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRSLSNT 299
Score = 211 bits (539), Expect = 1e-62
Identities = 71/172 (41%), Positives = 104/172 (60%), Gaps = 8/172 (4%)
Query: 506 IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLD-ANFLKVVSSAIVDKY 564
+ LP+ P LF TP +G LL+GPPGTGK+ LA+AVA++ + + F + SS +V K+
Sbjct: 28 VILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKW 86
Query: 565 IGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGF 624
+GES +L++ +F AR ++P IIF+DEID++ G R + A R R E L QM G
Sbjct: 87 LGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---RIKTEFLVQMQGV 143
Query: 625 DSLGQ-VKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAG 675
+ ++ ATN P LD A+ R R +++I IPLP AR + K+H G
Sbjct: 144 GVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLG 193
>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 = 236 bits (604), Expect = 2e-71
Identities = 91/315 (28%), Positives = 150/315 (47%), Gaps = 58/315 (18%)
Query: 150 PREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCL 209
P+ ++ ++ + P + + I G+ ++E++ P+L P++F + PPKG L
Sbjct: 64 PKMIELIMNEIMDHGP-PVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGIL 121
Query: 210 LYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYF 269
L+GPPGTGKTL+ + +ASQ A F +
Sbjct: 122 LFGPPGTGKTLIGKCIASQSGATFFSI--------------------------------- 148
Query: 270 PFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRT 329
+S++ K++GE +++R +F AR QP +IF+DEID++ +R + R R
Sbjct: 149 --SASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSR---RI 203
Query: 330 LMELLNQMDGFDSLG--QVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTW 387
E L Q+DG + ++ ++ ATNRP +D A R RL +++ IPLP AR
Sbjct: 204 KTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR--RLVKRLYIPLPEASARKQIV- 260
Query: 388 PISIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREY---------- 437
I++ + E + E +V+ SD+F+GAD+ +C EA L IRS +
Sbjct: 261 -INLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQTADIATITPDQV 319
Query: 438 --VTQEDFMKAVRKV 450
+ DF A R V
Sbjct: 320 RPIAYIDFENAFRTV 334
Score = 211 bits (539), Expect = 3e-62
Identities = 65/170 (38%), Positives = 102/170 (60%), Gaps = 8/170 (4%)
Query: 506 IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYI 565
+ P+L P++F + PPKG LL+GPPGTGKTL+ + +ASQ A F + +S++ K++
Sbjct: 100 VVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWV 158
Query: 566 GESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFD 625
GE +++R +F AR QP +IF+DEID++ +R + R R E L Q+DG
Sbjct: 159 GEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSR---RIKTEFLVQLDGAT 215
Query: 626 SLG--QVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
+ ++ ++ ATNRP +D A R RL +++ IPLP AR +I+
Sbjct: 216 TSSEDRILVVGATNRPQEIDEAARR--RLVKRLYIPLPEASARKQIVINL 263
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 234 bits (599), Expect = 2e-70
Identities = 88/322 (27%), Positives = 149/322 (46%), Gaps = 66/322 (20%)
Query: 148 YLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKG 207
+ ++ + + + I G + L+E++ LP L PELF + P +G
Sbjct: 93 VDSNLANLIMNEIVDNGT-AVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR-APARG 150
Query: 208 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKT 267
LL+GPPG GKT+LA+AVA++ +A F +
Sbjct: 151 LLLFGPPGNGKTMLAKAVAAESNATFFNI------------------------------- 179
Query: 268 YFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQ 327
++++ KY+GE +L+R +F AR QP IIF+D++D++ R A R
Sbjct: 180 ----SAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASR--- 232
Query: 328 RTLMELLNQMDGFDSLG--QVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAH 385
R E L + DG S G +V ++ ATNRP LD A+LR R +++ + LPNE+ RL
Sbjct: 233 RLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLL 290
Query: 386 TWPISIHAGPIAKHG----EIDYEAVVKLSDSFNGADLRNVCTEAGLFAIR--------- 432
+ + K G + + + +++D ++G+DL + +A L IR
Sbjct: 291 ---LKNL---LCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAALGPIRELKPEQVKN 344
Query: 433 ---SEREYVTQEDFMKAVRKVS 451
SE + DF ++++K+
Sbjct: 345 MSASEMRNIRLSDFTESLKKIK 366
Score = 210 bits (537), Expect = 2e-61
Identities = 71/170 (41%), Positives = 105/170 (61%), Gaps = 8/170 (4%)
Query: 506 IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYI 565
+ LP L PELF + P +G LL+GPPG GKT+LA+AVA++ +A F + ++++ KY+
Sbjct: 131 VILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYV 189
Query: 566 GESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFD 625
GE +L+R +F AR QP IIF+D++D++ R A R R E L + DG
Sbjct: 190 GEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASR---RLKTEFLIEFDGVQ 246
Query: 626 SLG--QVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
S G +V ++ ATNRP LD A+LR R +++ + LPNE+ RL +LK
Sbjct: 247 SAGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNL 294
>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 = 228 bits (584), Expect = 1e-68
Identities = 94/333 (28%), Positives = 155/333 (46%), Gaps = 57/333 (17%)
Query: 167 DITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVA 226
++ + + GL L+E + LP+ P LF+ P G LLYGPPGTGK+ LA+AVA
Sbjct: 47 NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVA 105
Query: 227 SQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESAR 286
++ ++ F V SS +V K++GES +
Sbjct: 106 TEANSTFFSVSSS-----------------------------------DLVSKWMGESEK 130
Query: 287 LIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDS-LGQ 345
L++++F AR ++P IIF+D++DA+ G R + A R R ELL QM+G +
Sbjct: 131 LVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASR---RIKTELLVQMNGVGNDSQG 187
Query: 346 VKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKH--GEID 403
V ++ ATN P LD A+ R R +R+I IPLP+ AR I+ G + D
Sbjct: 188 VLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTM---FEINVGDT-PSVLTKED 241
Query: 404 YEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHCNSYR 463
Y + +++ ++G+D+ V +A + I R+ + F + + +KL +
Sbjct: 242 YRTLGAMTEGYSGSDIAVVVKDALMQPI---RKIQSATHFKDVSTEDDETRKLTPSSPGD 298
Query: 464 TEAGLFAIRSERE------YVTQEDFMKAVRKV 490
A + +T +DF+KA++
Sbjct: 299 DGAIEMSWTDIEADELKEPDLTIKDFLKAIKST 331
Score = 201 bits (513), Expect = 2e-58
Identities = 73/171 (42%), Positives = 108/171 (63%), Gaps = 7/171 (4%)
Query: 506 IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYI 565
+ LP+ P LF+ P G LLYGPPGTGK+ LA+AVA++ ++ F V SS +V K++
Sbjct: 67 VILPVKFPHLFKG-NRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWM 125
Query: 566 GESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFD 625
GES +L++++F AR ++P IIF+D++DA+ G R + A R R ELL QM+G
Sbjct: 126 GESEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASR---RIKTELLVQMNGVG 182
Query: 626 S-LGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAG 675
+ V ++ ATN P LD A+ R R +R+I IPLP+ AR + +I+ G
Sbjct: 183 NDSQGVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVG 231
>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 = 224 bits (572), Expect = 5e-68
Identities = 97/295 (32%), Positives = 151/295 (51%), Gaps = 51/295 (17%)
Query: 163 EDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 222
+ ++ + + G E E+ E+++ L PE + +G PKG LL GPPGTGKTLLA
Sbjct: 3 AEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLA 61
Query: 223 RAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYS---SAIVDK 279
+AVA + PF+S S+ ++
Sbjct: 62 KAVAGEAHV--------------------------------------PFFSMGGSSFIEM 83
Query: 280 YIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSA---DREIQRTLMELLNQ 336
++G A +R++F A+ P IIF+DEIDAIG R + G + +RE +TL +LL +
Sbjct: 84 FVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDERE--QTLNQLLAE 141
Query: 337 MDGFDSLGQ-VKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGP 395
MDGF S V ++ ATNRP+ LDPAL+RPGR DR++ + P+ R+ + +H
Sbjct: 142 MDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVE---ILKVHIKG 198
Query: 396 IAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
+ +++ + V KL+ GADL N+ EA L A R+ ++ V Q+ +AV +
Sbjct: 199 VKLANDVNLQEVAKLTAGLAGADLANIINEAALLAGRNNQKEVRQQHLKEAVERG 253
Score = 197 bits (503), Expect = 4e-58
Identities = 80/182 (43%), Positives = 116/182 (63%), Gaps = 7/182 (3%)
Query: 497 ESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
E+K + +++ L PE + +G PKG LL GPPGTGKTLLA+AVA + F +
Sbjct: 18 EAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMG 76
Query: 557 SSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSA---DREIQRT 613
S+ ++ ++G A +R++F A+ P IIF+DEIDAIG R + G + +RE +T
Sbjct: 77 GSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDERE--QT 134
Query: 614 LMELLNQMDGFDSLGQ-VKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKI 672
L +LL +MDGF S V ++ ATNRP+ LDPAL+RPGR DR++ + P+ R+EILK+
Sbjct: 135 LNQLLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKV 194
Query: 673 HA 674
H
Sbjct: 195 HI 196
>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 = 221 bits (566), Expect = 3e-67
Identities = 95/286 (33%), Positives = 143/286 (50%), Gaps = 42/286 (14%)
Query: 168 ITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVAS 227
+++ + G+ E E+RE ++ L +PE F ++G PKG LL GPPG GKTLLA+AVA+
Sbjct: 3 VSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61
Query: 228 QLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARL 287
+ FL + + FV ++ G A
Sbjct: 62 EAQVPFLAMAGAEFV----EV-------------------------------IGGLGAAR 86
Query: 288 IREMFNYARNHQPCIIFMDEIDAIGGRR-FSEGTSADREIQRTLMELLNQMDGFDSLGQV 346
+R +F AR PCI+++DEIDA+G +R + ++ E ++TL +LL +MDG + V
Sbjct: 87 VRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHV 146
Query: 347 KMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEIDYEA 406
++ +TNR D LD AL+RPGRLDR + I LP Q R H + + +
Sbjct: 147 IVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERRE---IFEQHLKSLKLTQSSTFYS 203
Query: 407 VV--KLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
+L+ F+GAD+ N+C EA L A R V +F AV +V
Sbjct: 204 QRLAELTPGFSGADIANICNEAALHAAREGHTSVHTLNFEYAVERV 249
Score = 198 bits (505), Expect = 2e-58
Identities = 77/182 (42%), Positives = 113/182 (62%), Gaps = 2/182 (1%)
Query: 497 ESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
E+KL+ + ++ L +PE F ++G PKG LL GPPG GKTLLA+AVA++ FL +
Sbjct: 13 EAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMA 71
Query: 557 SSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRR-FSEGTSADREIQRTLM 615
+ V+ G A +R +F AR PCI+++DEIDA+G +R + ++ E ++TL
Sbjct: 72 GAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLN 131
Query: 616 ELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAG 675
+LL +MDG + V ++ +TNR D LD AL+RPGRLDR + I LP Q R EI + H
Sbjct: 132 QLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLK 191
Query: 676 PI 677
+
Sbjct: 192 SL 193
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 221 bits (564), Expect = 4e-67
Identities = 104/291 (35%), Positives = 153/291 (52%), Gaps = 39/291 (13%)
Query: 160 MSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKT 219
M ED T++ + G E E+ E++E L P FQ++G PKG L+ GPPGTGKT
Sbjct: 1 MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKT 59
Query: 220 LLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDK 279
LLA+A+A + F + S FV +M
Sbjct: 60 LLAKAIAGEAKVPFFTISGSDFV----EM------------------------------- 84
Query: 280 YIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDG 339
++G A +R+MF A+ PCIIF+DEIDA+G +R + E ++TL ++L +MDG
Sbjct: 85 FVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDG 144
Query: 340 FDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKH 399
F+ + +I ATNRPD LDPALLRPGR DR++ + LP+ + R + +H +
Sbjct: 145 FEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQ---ILKVHMRRVPLA 201
Query: 400 GEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
+ID + + + F+GADL N+ EA LFA R + V+ +F KA K+
Sbjct: 202 PDIDAAIIARGTPGFSGADLANLVNEAALFAARGNKRVVSMVEFEKAKDKI 252
Score = 197 bits (503), Expect = 3e-58
Identities = 80/178 (44%), Positives = 116/178 (65%), Gaps = 1/178 (0%)
Query: 497 ESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
E+K + ++E L P FQ++G PKG L+ GPPGTGKTLLA+A+A + F +
Sbjct: 19 EAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTIS 77
Query: 557 SSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLME 616
S V+ ++G A +R+MF A+ PCIIF+DEIDA+G +R + E ++TL +
Sbjct: 78 GSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQ 137
Query: 617 LLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHA 674
+L +MDGF+ + +I ATNRPD LDPALLRPGR DR++ + LP+ + R +ILK+H
Sbjct: 138 MLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHM 195
>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 = 217 bits (556), Expect = 5e-66
Identities = 104/288 (36%), Positives = 146/288 (50%), Gaps = 39/288 (13%)
Query: 160 MSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKT 219
+ +T+ + G E EL+E++E L NP F +G PKG LL GPPG GKT
Sbjct: 5 SVLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKT 63
Query: 220 LLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDK 279
LARAVA + F+ S FV +M
Sbjct: 64 HLARAVAGEARVPFITASGSDFV----EM------------------------------- 88
Query: 280 YIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDG 339
++G A +R++F A+ H PCI+F+DEIDA+G +R S + E ++TL +LL +MDG
Sbjct: 89 FVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDG 148
Query: 340 FDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKH 399
F+ + ++ ATNRPD LDPALLRPGR DR+I I P+ + R + IHA
Sbjct: 149 FEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQ---ILRIHARGKPLA 205
Query: 400 GEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAV 447
++D + K + F GADL N+ EA L A R R +T +D +A
Sbjct: 206 EDVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRKITMKDLEEAA 253
Score = 195 bits (498), Expect = 1e-57
Identities = 84/178 (47%), Positives = 116/178 (65%), Gaps = 1/178 (0%)
Query: 497 ESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
E+K + K ++E L NP F +G PKG LL GPPG GKT LARAVA + F+
Sbjct: 23 EAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITAS 81
Query: 557 SSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLME 616
S V+ ++G A +R++F A+ H PCI+F+DEIDA+G +R S + E ++TL +
Sbjct: 82 GSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQ 141
Query: 617 LLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHA 674
LL +MDGF+ + ++ ATNRPD LDPALLRPGR DR+I I P+ + R +IL+IHA
Sbjct: 142 LLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHA 199
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 216 bits (552), Expect = 5e-65
Identities = 104/286 (36%), Positives = 146/286 (51%), Gaps = 39/286 (13%)
Query: 162 HEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLL 221
+ +T+ + G E EL+E++E L NP F +G PKG LL GPPG GKT L
Sbjct: 31 LTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHL 89
Query: 222 ARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYI 281
ARAVA + F+ S FV +M ++
Sbjct: 90 ARAVAGEARVPFITASGSDFV----EM-------------------------------FV 114
Query: 282 GESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFD 341
G A +R++F A+ H PCI+F+DEIDA+G +R S + E ++TL +LL +MDGF+
Sbjct: 115 GVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFE 174
Query: 342 SLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGE 401
+ ++ ATNRPD LDPALLRPGR DR+I I P+ + R + IHA +
Sbjct: 175 KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQ---ILRIHARGKPLAED 231
Query: 402 IDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAV 447
+D + K + F GADL N+ EA L A R R +T +D +A
Sbjct: 232 VDLALLAKRTPGFVGADLENLLNEAALLAAREGRRKITMKDLEEAA 277
Score = 196 bits (500), Expect = 1e-57
Identities = 84/178 (47%), Positives = 116/178 (65%), Gaps = 1/178 (0%)
Query: 497 ESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
E+K + K ++E L NP F +G PKG LL GPPG GKT LARAVA + F+
Sbjct: 47 EAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITAS 105
Query: 557 SSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLME 616
S V+ ++G A +R++F A+ H PCI+F+DEIDA+G +R S + E ++TL +
Sbjct: 106 GSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQ 165
Query: 617 LLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHA 674
LL +MDGF+ + ++ ATNRPD LDPALLRPGR DR+I I P+ + R +IL+IHA
Sbjct: 166 LLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHA 223
>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 = 8e-65
Identities = 105/467 (22%), Positives = 183/467 (39%), Gaps = 71/467 (15%)
Query: 37 QLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSENDLKALQSVGQVS 96
L Q DK+ N +ALQ + + K + + K
Sbjct: 13 DLASKAAQEDKAGNYEEALQLYQHA-------VQYFLHVVKYEAQGDK-AKQSIRAKCTE 64
Query: 97 LSTSVSKCWTVIVKATNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPL 156
K + K P+ + ++ + +++
Sbjct: 65 YLDRAEKLKEYLKKKEKKPQ-----KPVKEEQSGPVDEKGNDSDGEAESDDPEKKKLQNQ 119
Query: 157 VYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGT 216
+ + ++ +S + GL L+E + LP+ P LF TP +G LL+GPPGT
Sbjct: 120 LQGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTG-KRTPWRGILLFGPPGT 178
Query: 217 GKTLLARAVASQLD-ANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSA 275
GK+ LA+AVA++ + + F + SS
Sbjct: 179 GKSYLAKAVATEANNSTFFSISSS-----------------------------------D 203
Query: 276 IVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN 335
+V K++GES +L++ +F AR ++P IIF+DEID++ G R + A R R E L
Sbjct: 204 LVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---RIKTEFLV 260
Query: 336 QMDGFDSLGQ-VKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAG 394
QM G + ++ ATN P LD A+ R R +++I IPLP AR A +H G
Sbjct: 261 QMQGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAM---FRLHLG 315
Query: 395 PIAKHG--EIDYEAVVKLSDSFNGADLRNVCTEAGLFAIR---SEREYVTQEDFMKAVRK 449
++ E D++ + + +D ++GAD+ + +A + +R S + +A
Sbjct: 316 ST-QNSLTEADFQELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPN 374
Query: 450 VSDNKKLDHCNSYRTEA------GLFAIRSEREYVTQEDFMKAVRKV 490
N L C+ A + + V+ D ++++
Sbjct: 375 CIVNDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMWDMLRSLSST 421
Score = 197 bits (503), Expect = 3e-56
Identities = 70/173 (40%), Positives = 104/173 (60%), Gaps = 8/173 (4%)
Query: 503 KPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLD-ANFLKVVSSAIV 561
K + LP+ P LF TP +G LL+GPPGTGK+ LA+AVA++ + + F + SS +V
Sbjct: 147 KEAVILPIKFPHLFTG-KRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLV 205
Query: 562 DKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQM 621
K++GES +L++ +F AR ++P IIF+DEID++ G R + A R R E L QM
Sbjct: 206 SKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAAR---RIKTEFLVQM 262
Query: 622 DGFDSLGQ-VKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
G + ++ ATN P LD A+ R R +++I IPLP AR + ++H
Sbjct: 263 QGVGVDNDGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLH 313
>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 = 213 bits (544), Expect = 2e-61
Identities = 115/298 (38%), Positives = 159/298 (53%), Gaps = 53/298 (17%)
Query: 160 MSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKT 219
+T+ +GG E I EL+EV+E L +P F R+G PKG LL GPPGTGKT
Sbjct: 5 YKPSGNKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKT 63
Query: 220 LLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYS---SAI 276
LLARAVA + V PF+ S
Sbjct: 64 LLARAVAGEA-----NV---------------------------------PFFHISGSDF 85
Query: 277 VDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFS-EGTSAD-REIQRTLMELL 334
V+ ++G A +R++F A+ H PCI+F+DEIDA+G R + G D RE +TL +LL
Sbjct: 86 VELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDERE--QTLNQLL 143
Query: 335 NQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAG 394
+MDGFDS + ++ ATNRPD LDPALLRPGR D+KI + P+ R + IH
Sbjct: 144 VEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKK---ILEIHTR 200
Query: 395 --PIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
P+A+ +++ E + K + F GADL N+ EA L A R R+ +T +DF +A+ +V
Sbjct: 201 NKPLAE--DVNLEIIAKRTPGFVGADLENLVNEAALLAAREGRDKITMKDFEEAIDRV 256
Score = 191 bits (487), Expect = 2e-53
Identities = 88/180 (48%), Positives = 118/180 (65%), Gaps = 5/180 (2%)
Query: 497 ESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
E+ + K V+E L +P F R+G PKG LL GPPGTGKTLLARAVA + + F +
Sbjct: 23 EAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARAVAGEANVPFFHIS 81
Query: 557 SSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFS-EGTSAD-REIQRTL 614
S V+ ++G A +R++F A+ H PCI+F+DEIDA+G R + G D RE +TL
Sbjct: 82 GSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDERE--QTL 139
Query: 615 MELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHA 674
+LL +MDGFDS + ++ ATNRPD LDPALLRPGR D+KI + P+ R +IL+IH
Sbjct: 140 NQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHT 199
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 212 bits (541), Expect = 8e-61
Identities = 109/296 (36%), Positives = 155/296 (52%), Gaps = 53/296 (17%)
Query: 162 HEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLL 221
+ +T+ + G E EL+E++E L NP F +G PKG LL GPPG GKT L
Sbjct: 22 LTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHL 80
Query: 222 ARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYS---SAIVD 278
ARAVA + +V PF + S V+
Sbjct: 81 ARAVAGEA-----RV---------------------------------PFITASGSDFVE 102
Query: 279 KYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFS--EGTSADREIQRTLMELLNQ 336
++G A +R++F A+ H PCI+F+DEIDA+G +R S G + +RE +TL +LL +
Sbjct: 103 MFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDERE--QTLNQLLVE 160
Query: 337 MDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAG-- 394
MDGF+ + ++ ATNRPD LDPALLRPGR DR+I I P+ + R + IHA
Sbjct: 161 MDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQ---ILRIHARGK 217
Query: 395 PIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
P+A+ ++D + K + F GADL N+ EA L A R R +T +D +A +V
Sbjct: 218 PLAE--DVDLALLAKRTPGFVGADLENLLNEAALLAAREGRRKITMKDLEEAADRV 271
Score = 190 bits (486), Expect = 3e-53
Identities = 86/180 (47%), Positives = 118/180 (65%), Gaps = 5/180 (2%)
Query: 497 ESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
E+K + K ++E L NP F +G PKG LL GPPG GKT LARAVA + F+
Sbjct: 38 EAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVPFITAS 96
Query: 557 SSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFS--EGTSADREIQRTL 614
S V+ ++G A +R++F A+ H PCI+F+DEIDA+G +R S G + +RE +TL
Sbjct: 97 GSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDERE--QTL 154
Query: 615 MELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHA 674
+LL +MDGF+ + ++ ATNRPD LDPALLRPGR DR+I I P+ + R +IL+IHA
Sbjct: 155 NQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHA 214
>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 = 180 bits (458), Expect = 8e-52
Identities = 49/227 (21%), Positives = 91/227 (40%), Gaps = 18/227 (7%)
Query: 506 IELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYI 565
EL + + R TP LL GPP +GKT LA +A + + F+K+ S + +
Sbjct: 49 GELLVQQTKNSDR---TPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFS 105
Query: 566 GES-ARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGF 624
+ + ++++F+ A Q + +D+I+ + R L LL +
Sbjct: 106 ETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYV----PIGPRFSNLVLQALLVLLKKA 161
Query: 625 DSLGQ-VKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAGPIAKHGEI 683
G+ + +I T+R D L + I + PN ++L+ G
Sbjct: 162 PPQGRKLLIIGTTSRKDVLQ-EMEMLNAFSTTIHV--PNIATGEQLLEAL----ELLGNF 214
Query: 684 GDAATKWVLPFTAGGFIYIA--TVSVIPELLEDTSPKQTVKEILALL 728
D + G ++I + ++ E+ P+ V++ LALL
Sbjct: 215 KDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYRVRKFLALL 261
Score = 173 bits (441), Expect = 2e-49
Identities = 51/302 (16%), Positives = 95/302 (31%), Gaps = 53/302 (17%)
Query: 152 EVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLY 211
++ P + + ED + I + + + + EL + + R TP LL
Sbjct: 15 DIKP-AFGTNQEDYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDR---TPLVSVLLE 70
Query: 212 GPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPF 271
GPP +GKT LA +A + + F+K+ S + M
Sbjct: 71 GPPHSGKTALAAKIAEESNFPFIKICSP------DKMI---------------------- 102
Query: 272 YSSAIVDKYIGES-ARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTL 330
+ + + ++++F+ A Q + +D+I+ + R L
Sbjct: 103 -------GFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYV----PIGPRFSNLVL 151
Query: 331 MELLNQMDGFDSLGQ-VKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPI 389
LL + G+ + +I T+R D L + I +P +L
Sbjct: 152 QALLVLLKKAPPQGRKLLIIGTTSRKDVLQ-EMEMLNAFSTTIHVPNIATGEQLLE---A 207
Query: 390 SIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRK 449
G VK + G + E L R F+ +R+
Sbjct: 208 LELLGNFKDKERTTIAQQVKGKKVWIGIKKLLMLIEMSLQMDPEYR----VRKFLALLRE 263
Query: 450 VS 451
Sbjct: 264 EG 265
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 123 bits (311), Expect = 7e-34
Identities = 32/84 (38%), Positives = 46/84 (54%), Gaps = 5/84 (5%)
Query: 372 IEIPLPNEQARLAHTWPI-SIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFA 430
PNE+ARL I IH+ + I+ + +L +GA+++ VCTEAG++A
Sbjct: 6 HHHSHPNEEARLD----ILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYA 61
Query: 431 IRSEREYVTQEDFMKAVRKVSDNK 454
+R R +VTQEDF AV KV
Sbjct: 62 LRERRVHVTQEDFEMAVAKVMQKD 85
Score = 49.8 bits (120), Expect = 6e-08
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 656 IEIPLPNEQARLEILKIHAGPIAKHGEI 683
PNE+ARL+ILKIH+ + I
Sbjct: 6 HHHSHPNEEARLDILKIHSRKMNLTRGI 33
>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 = 114 bits (289), Expect = 6e-31
Identities = 33/81 (40%), Positives = 47/81 (58%), Gaps = 5/81 (6%)
Query: 375 PLPNEQARLAHTWPI-SIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRS 433
P PNE+ARL I IH+ + I+ + +L +GA+++ VCTEAG++A+R
Sbjct: 1 PPPNEEARLD----ILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRE 56
Query: 434 EREYVTQEDFMKAVRKVSDNK 454
R +VTQEDF AV KV
Sbjct: 57 RRVHVTQEDFEMAVAKVMQKD 77
Score = 42.9 bits (102), Expect = 1e-05
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 659 PLPNEQARLEILKIHAGPIAKHGEI 683
P PNE+ARL+ILKIH+ + I
Sbjct: 1 PPPNEEARLDILKIHSRKMNLTRGI 25
>2wg5_A General control protein GCN4, proteasome-activating nucleotidase;
transcription hydrolase complex, nucleotide-binding;
2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A
Length = 109
Score = 96.5 bits (240), Expect = 4e-24
Identities = 32/141 (22%), Positives = 62/141 (43%), Gaps = 33/141 (23%)
Query: 24 HAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSE 83
H R++++ ++++EL + EN++ L+S + ++ +
Sbjct: 2 HHHHHHRMKQLEDKVEELLSKNYHLENEVARLRSPPL----------LVGVVSDILEDGR 51
Query: 84 NDLKALQSVGQVSLSTSVSKCWTVIVKATNGPRYVVGCRRQLDKAKLKSGTRVALDMTTL 143
V+VK++ GP++VV + +++ +LK G RVAL+ TL
Sbjct: 52 -----------------------VVVKSSTGPKFVVNTSQYINEEELKPGARVALNQQTL 88
Query: 144 TIMRYLPREVDPLVYNMSHED 164
I+ LP DP+VY E+
Sbjct: 89 AIVNVLPTSKDPMVYGFEVEE 109
>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 = 95.7 bits (239), Expect = 5e-24
Identities = 28/60 (46%), Positives = 43/60 (71%)
Query: 391 IHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
IH+ ++ I +E + +L + GA+LR+VCTEAG+FAIR+ R+ T++DF+KAV KV
Sbjct: 12 IHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKVATEKDFLKAVDKV 71
Score = 30.6 bits (70), Expect = 0.30
Identities = 5/22 (22%), Positives = 11/22 (50%)
Query: 662 NEQARLEILKIHAGPIAKHGEI 683
+ + R I +IH+ ++ I
Sbjct: 2 DLEGRANIFRIHSKSMSVERGI 23
>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 = 93.9 bits (234), Expect = 2e-23
Identities = 21/68 (30%), Positives = 34/68 (50%)
Query: 391 IHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
+ E+D E V D +GAD+ ++C E+G+ A+R R V +DF KA + V
Sbjct: 12 TITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVRENRYIVLAKDFEKAYKTV 71
Query: 451 SDNKKLDH 458
+ +H
Sbjct: 72 IKKDEQEH 79
Score = 29.6 bits (67), Expect = 0.74
Identities = 2/22 (9%), Positives = 7/22 (31%)
Query: 662 NEQARLEILKIHAGPIAKHGEI 683
+ + + I + E+
Sbjct: 2 DRRQKRLIFSTITSKMNLSEEV 23
>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 = 95.7 bits (237), Expect = 2e-20
Identities = 102/689 (14%), Positives = 217/689 (31%), Gaps = 203/689 (29%)
Query: 24 HAEVEGRLREMREQLKELTKQYD---KSENDLKALQSVGQHDLLLHCV-REQLKELTKQY 79
H ++ E + Q K++ ++ D K +Q D+ + +E++ +
Sbjct: 4 HHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQ-----DMPKSILSKEEIDHIIMSK 58
Query: 80 DKSENDLKALQSVGQVSLSTSVSKCWTVIVKATNGPRYVVGCRRQLDKAKLKSGTRVALD 139
D L+ WT++ K + V +++ L S +
Sbjct: 59 DAVSGTLRLF---------------WTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQR 103
Query: 140 MTTLTIMRYLPREVDPLVYNMSHE-DPGDITYSAIGGLSEQIRELREVIELPLLNPELFQ 198
++ Y+ + D L YN + +++ + +LR+ LL
Sbjct: 104 QPSMMTRMYI-EQRDRL-YNDNQVFAKYNVSRL------QPYLKLRQA----LLE----- 146
Query: 199 RVGITPPKGCLLYGPPGTGKTLLARAVASQ---LDANFLKV--VSSLFVTSKEDMAILMG 253
+ P K L+ G G+GKT +A V K+ ++ S E + + M
Sbjct: 147 ---LRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETV-LEML 202
Query: 254 NQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDE------ 307
+L + ++ + + K S + ++ ++ C++ +
Sbjct: 203 QKL----LYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA 258
Query: 308 IDAIGGRRFSEG-----TSADREIQRTLMELLNQMDGFDSLG--QVKMIMATNRPDTLDP 360
+A F+ T+ +++ D L I + TL P
Sbjct: 259 WNA-----FNLSCKILLTTRFKQV-------------TDFLSAATTTHISLDHHSMTLTP 300
Query: 361 ALLRPGRLDRKIEIP---LPNEQARLAHTWPISIHAGPIA-------------KHGEID- 403
++ L + ++ LP + + +SI IA KH D
Sbjct: 301 DEVK-SLLLKYLDCRPQDLP-REVLTTNPRRLSI----IAESIRDGLATWDNWKHVNCDK 354
Query: 404 YEAVVKLS-DSFNGADLRNVCTEAGLF------------AIRSEREYVTQEDFMKAVRKV 450
+++ S + A+ R + +F I + + + K
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY 414
Query: 451 SDNKKLDHCNSYRTEAGLFAIRSEREYVTQEDFMKAV-RKVSDNKKLESKLDYKPVIELP 509
S +K S + ++ E + + A+ R + D+ + D +I
Sbjct: 415 SLVEK-QPKESTISIPSIY-----LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPY 468
Query: 510 ------------LLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFL--KV 555
L N E +R+ + +++ LD FL K+
Sbjct: 469 LDQYFYSHIGHHLKNIEHPERMTLFR----MVF-----------------LDFRFLEQKI 507
Query: 556 --------VSSAIVD---------KYIGES----ARLIREMFNYARNHQP--------CI 586
S +I++ YI ++ RL+ + ++ + +
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL 567
Query: 587 I---FMDEIDAIGGRRFSEGTSADREIQR 612
+ M E +AI F E A +++QR
Sbjct: 568 LRIALMAEDEAI----FEE---AHKQVQR 589
Score = 54.5 bits (130), Expect = 1e-07
Identities = 63/375 (16%), Positives = 123/375 (32%), Gaps = 123/375 (32%)
Query: 400 GEIDY----------EAVVKLSDSFNGAD-LRNVCTEAGLFAIRSEREYVTQEDFM---- 444
GE Y +A V D + D +++ ++ + I ++ V+ +
Sbjct: 12 GEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTL 71
Query: 445 -----KAVRK-VSDNKKLDH---CNSYRTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKK 495
+ V+K V + ++++ + +TE ++ R Y+ Q D R +DN+
Sbjct: 72 LSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMM-TRMYIEQRD-----RLYNDNQV 125
Query: 496 LESKLD---YKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANF 552
+K + +P ++L L + + P K L+ G G+GKT +A V
Sbjct: 126 F-AKYNVSRLQPYLKL---RQALLE---LRPAKNVLIDGVLGSGKTWVALDVCLSYK--- 175
Query: 553 LKVVSSAIVDKYIGESARLIREMFNYARNHQPCIIF-MDEIDAIGGRRFSEGTSADREIQ 611
++ ++ IF ++ + + +
Sbjct: 176 -------------------VQCKMDFK-------IFWLN----LKNCN------SPETVL 199
Query: 612 RTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARL-EIL 670
L +LL Q+D T+R D I++ + + QA L +L
Sbjct: 200 EMLQKLLYQIDP----------NWTSRSDHSSN-----------IKLRIHSIQAELRRLL 238
Query: 671 KIHAGP----IAKHGEIGDAATKWVL-PFTAGGFIYIAT--VSVIPEL---------LED 714
K + + + F I + T V L L+
Sbjct: 239 KSKPYENCLLV-----LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDH 293
Query: 715 TSPKQTVKEILALLL 729
S T E+ +LLL
Sbjct: 294 HSMTLTPDEVKSLLL 308
>3h43_A Proteasome-activating nucleotidase; regulatory particle,
nucleosidase, ATP-binding, cytoplasm,
nucleotide-binding, hydrolase; 2.10A {Methanocaldococcus
jannaschii}
Length = 85
Score = 82.9 bits (205), Expect = 1e-19
Identities = 19/84 (22%), Positives = 36/84 (42%), Gaps = 1/84 (1%)
Query: 77 KQYDKSENDLKALQSVGQ-VSLSTSVSKCWTVIVKATNGPRYVVGCRRQLDKAKLKSGTR 135
K+ + +L ++ V V+VK++ GP ++V ++ L G R
Sbjct: 2 KENEILRRELDRMRVPPLIVGTVVDKVGERKVVVKSSTGPSFLVNVSHFVNPDDLAPGKR 61
Query: 136 VALDMTTLTIMRYLPREVDPLVYN 159
V L+ TLT++ LP ++
Sbjct: 62 VCLNQQTLTVVDVLPELEHHHHHH 85
>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 = 79.3 bits (196), Expect = 2e-18
Identities = 17/65 (26%), Positives = 30/65 (46%)
Query: 391 IHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKV 450
A ++ E D ++++ +DS +GA + + EAGL A+R R + Q D +A
Sbjct: 9 TIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKNRYVILQSDLEEAYATQ 68
Query: 451 SDNKK 455
Sbjct: 69 VKTDN 73
>3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel
inter domain, chaperone; 3.94A {Mycobacterium
tuberculosis} PDB: 3m9d_A
Length = 251
Score = 80.2 bits (197), Expect = 7e-17
Identities = 31/187 (16%), Positives = 57/187 (30%), Gaps = 20/187 (10%)
Query: 26 EVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSEND 85
+ ++ ++ L + K LK R+QL L ++ D+
Sbjct: 51 RSARDIHQLEARIDSLAARNSKLMETLKEA-------------RQQLLALREEVDR---L 94
Query: 86 LKALQSVGQVSLSTSVSKCWTVIVKATNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTI 145
+ G + + TV V T+G + + C +D A LK G V L+ +
Sbjct: 95 GQPPSGYGVL---LATHDDDTVDVF-TSGRKMRLTCSPNIDAASLKKGQTVRLNEALTVV 150
Query: 146 MRYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPP 205
V + G E++ L + + L L + +
Sbjct: 151 EAGTFEAVGEISTLREILADGHRALVVGHADEERVVWLADPLIAEDLPDGLPEALNDDTR 210
Query: 206 KGCLLYG 212
L G
Sbjct: 211 PRKLRPG 217
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 76.7 bits (188), Expect = 2e-15
Identities = 47/283 (16%), Positives = 84/283 (29%), Gaps = 48/283 (16%)
Query: 175 GLSEQIRELREVIELPLLNPELFQRVGITPPKG---CLLYGPPGTGKTLLARAVASQLDA 231
GL +RE L LL Q++G+ G PGTGKT +A +A
Sbjct: 35 GLKPVKDRIRETAAL-LLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMA----- 88
Query: 232 NFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREM 291
++ L K + + +V +YIG +A +E+
Sbjct: 89 ---GLLHRLGYVRKGHLVSVTR--------------------DDLVGQYIGHTAPKTKEV 125
Query: 292 FNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMA 351
A ++F+DE + R +E L++++ +
Sbjct: 126 LKRAM---GGVLFIDEAYYLY--RPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADR 180
Query: 352 TNRPDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAG----PIAKHGEIDYEAV 407
+P R+ IE P +++ + P A+ Y +
Sbjct: 181 MENFFQSNPGFRS--RIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGL 238
Query: 408 VKLSDSF-NGADLRNVCTEAGLFA----IRSEREYVTQEDFMK 445
+ F N +RN A L + +
Sbjct: 239 RRNQPHFANARSIRNALDRARLRQANRLFTASSGPLDARALST 281
Score = 74.0 bits (181), Expect = 2e-14
Identities = 35/175 (20%), Positives = 62/175 (35%), Gaps = 17/175 (9%)
Query: 510 LLNPELFQRVGITPPKG---CLLYGPPGTGKTLLARAVASQL-------DANFLKVVSSA 559
LL Q++G+ G PGTGKT +A +A L + + V
Sbjct: 50 LLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDD 109
Query: 560 IVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN 619
+V +YIG +A +E+ A ++F+DE + R +E L++++
Sbjct: 110 LVGQYIGHTAPKTKEVLKRAM---GGVLFIDEAYYLY--RPDNERDYGQEAIEILLQVME 164
Query: 620 QMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHA 674
+ +P R+ IE P +++ EI
Sbjct: 165 NNRDDLVVILAGYADRMENFFQSNPGFRS--RIAHHIEFPDYSDEELFEIAGHML 217
>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 = 67.4 bits (164), Expect = 5e-12
Identities = 49/335 (14%), Positives = 103/335 (30%), Gaps = 51/335 (15%)
Query: 178 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 237
+QIR++ ++ + P +YG GTGKT + + V S+L FL
Sbjct: 27 DQIRKIASILAPLYREEK---------PNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKF 77
Query: 238 SSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARN 297
+++ N + + + + + + + R +
Sbjct: 78 KHVYI-----------NTRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDY 126
Query: 298 HQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPD- 356
+I +DEIDA + + +I L + ++++ ++ I TN
Sbjct: 127 GSQVVIVLDEIDAFVKKY-------NDDILYKLSRINSEVNK----SKISFIGITNDVKF 175
Query: 357 --TLDPALLRPGRLDRKIEIPLPNEQ------ARLAHTWPISIHAGPIAKHGEIDYEAVV 408
LDP + + I P E+ R + I A +
Sbjct: 176 VDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRA-----QMAFKPGVLPDNVIKLCAAL 230
Query: 409 KLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHCNSYRTEAGL 468
+ + ++ +G A R + V +E A ++ ++ D + + L
Sbjct: 231 AAREHGDARRALDLLRVSGEIAERMKDTKVKEEYVYMAKEEIERDRVRDIILTLPFHSKL 290
Query: 469 F------AIRSEREYVTQEDFMKAVRKVSDNKKLE 497
E T + + +E
Sbjct: 291 VLMAVVSISSEENVVSTTGAVYETYLNICKKLGVE 325
Score = 48.5 bits (115), Expect = 4e-06
Identities = 41/200 (20%), Positives = 67/200 (33%), Gaps = 39/200 (19%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIV-------------------DKY 564
P +YG GTGKT + + V S+L FL + D
Sbjct: 45 PNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVK 104
Query: 565 IGESARLIREMFNYARNH-----QPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLN 619
+ + I E++ +I +DEIDA + + +I L + +
Sbjct: 105 VPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKY-------NDDILYKLSRINS 157
Query: 620 QMDGFDSLGQVKMIMATNRPD---TLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAGP 676
+++ ++ I TN LDP + + I P E+ +IL A
Sbjct: 158 EVNK----SKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELE-DILTKRAQM 212
Query: 677 IAKHGEIGDAATKWVLPFTA 696
K G + D K A
Sbjct: 213 AFKPGVLPDNVIKLCAALAA 232
>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 = 66.3 bits (161), Expect = 1e-11
Identities = 46/329 (13%), Positives = 101/329 (30%), Gaps = 47/329 (14%)
Query: 178 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 237
+ +R+ I + E L G GTGKT +++ + ++++ +V
Sbjct: 27 DILRDAAIAIR-YFVKNE--------VKFSNLFLGLTGTGKTFVSKYIFNEIE----EVK 73
Query: 238 SSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARN 297
A + ++ L ++ G + +
Sbjct: 74 KEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKH--GINLGEYIDKIKNGTR 131
Query: 298 HQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNR--- 354
+ II++DE+D + R R L +L S + +IM +N
Sbjct: 132 NIRAIIYLDEVDTLVKR---------RGGDIVLYQL------LRSDANISVIMISNDINV 176
Query: 355 PDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEIDYEAVVKLSD-- 412
D ++P +L L + + + + + G D E + ++
Sbjct: 177 RDYMEPRVL--SSLGPSVIFKPYDAEQLKFILSKYAEYGLI---KGTYDDEILSYIAAIS 231
Query: 413 SFNGADLR---NVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHCNSYRTEAGLF 469
+ D R N+ A A S + +E KA+ + ++ + L
Sbjct: 232 AKEHGDARKAVNLLFRAAQLA--SGGGIIRKEHVDKAIVDYEQERLIEAVKALPFHYKLA 289
Query: 470 --AIRSEREYVTQEDFMKAVRKVSDNKKL 496
++ + ++ + K L
Sbjct: 290 LRSLIESEDVMSAHKMYTDLCNKFKQKPL 318
Score = 50.9 bits (121), Expect = 8e-07
Identities = 35/205 (17%), Positives = 65/205 (31%), Gaps = 49/205 (23%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQL-----DANFLKVVSSAIVD---------------- 562
L G GTGKT +++ + +++ + K V A V+
Sbjct: 45 KFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLA 104
Query: 563 --------KYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTL 614
G + + + II++DE+D + R R L
Sbjct: 105 GKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKR---------RGGDIVL 155
Query: 615 MELLNQMDGFDSLGQVKMIMATNR---PDTLDPALLRPGRLDRKIEIPLPNEQARLEILK 671
+L S + +IM +N D ++P +L L + + + IL
Sbjct: 156 YQL------LRSDANISVIMISNDINVRDYMEPRVL--SSLGPSVIFKPYDAEQLKFILS 207
Query: 672 IHAGPIAKHGEIGDAATKWVLPFTA 696
+A G D ++ +A
Sbjct: 208 KYAEYGLIKGTYDDEILSYIAAISA 232
>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA
replication initiation, DNA BIND protein, AAA+ ATPase;
HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11
c.37.1.20 PDB: 1w5t_A*
Length = 412
Score = 63.8 bits (154), Expect = 8e-11
Identities = 42/350 (12%), Positives = 92/350 (26%), Gaps = 39/350 (11%)
Query: 178 EQIRELREVIELPLLNPELFQRVGITPPKGCLLY---GPPGTGKTLLARAVASQLDANFL 234
+ L + LL+ G ++Y G G GKT LA+ ++
Sbjct: 29 GEAEALARIYLNRLLS-------GAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRV----- 76
Query: 235 KVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNY 294
S + N + + + I + L + N
Sbjct: 77 ---SEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNL 133
Query: 295 ARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNR 354
+ ++ +DE E TL+ + ++ D + ++ ++ +
Sbjct: 134 YVENHYLLVILDEFQ-----SMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASD 188
Query: 355 PDTLDPALLRPGRLDRKIEIPLPNEQARLAHTWPISIHAGPIAKHGEIDYEAVVKL---- 410
L + +++ +I L + + I + + ++L
Sbjct: 189 VRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDV 248
Query: 411 --SDSFNGADLR---NVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHCNSYRTE 465
D R A A R+ ++++ KAV + H +
Sbjct: 249 YGEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEAASIQTHELEALSI 308
Query: 466 AGLFAIRSE-------REYVTQEDFMKAVRKVSDNKKLESKLDYKPVIEL 508
L +R E++ + S Y
Sbjct: 309 HELIILRLIAEATLGGMEWINAGLLRQRYEDASLTMYNVKPRGYTQYHIY 358
Score = 45.7 bits (107), Expect = 4e-05
Identities = 24/211 (11%), Positives = 61/211 (28%), Gaps = 39/211 (18%)
Query: 520 GITPPKGCLLY---GPPGTGKTLLARAVASQL-------DANFLKV------------VS 557
G ++Y G G GKT LA+ ++ + +
Sbjct: 45 GAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTIL 104
Query: 558 SAIVDKYIGES-------ARLIREMFNY-ARNHQPCIIFMDEIDAIGGRRFSEGTSADRE 609
S IV + +++ + + + ++ +DE E
Sbjct: 105 SLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQ-----SMLSSPRIAAE 159
Query: 610 IQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGR----LDRKIEIPLPNEQA 665
TL+ + ++ D + ++ ++ + L + + + K+ +P +
Sbjct: 160 DLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRE 219
Query: 666 RLEILKIHAGPIAKHGEIGDAATKWVLPFTA 696
IL+ A + + +
Sbjct: 220 LYTILEQRAELGLRDTVWEPRHLELISDVYG 250
>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 = 63.7 bits (155), Expect = 1e-10
Identities = 24/108 (22%), Positives = 42/108 (38%), Gaps = 20/108 (18%)
Query: 525 KGCLLYGPPGTGKTLLARAVASQLDANFLKVVSS-----AIVDKYIGESAR-------LI 572
+ +LYGPPG GKT A VA +L + L+ +S +++ + +
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFK 137
Query: 573 REMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ 620
N + +I MDE+D + + DR L + +
Sbjct: 138 HNEEAQNLNGKHFVIIMDEVDGM--------SGGDRGGVGQLAQFCRK 177
Score = 58.4 bits (141), Expect = 5e-09
Identities = 50/266 (18%), Positives = 84/266 (31%), Gaps = 66/266 (24%)
Query: 169 TYSAIGGLSEQIRELREVIE----LPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARA 224
+ G + +L+ + + + + G + +LYGPPG GKT A
Sbjct: 37 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHL 96
Query: 225 VASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGES 284
VA +L + L+ +S D RS L + V Y +
Sbjct: 97 VAQELGYDILEQNAS-------D----------VRSKTLLNAGVKNALDNMSVVGYFKHN 139
Query: 285 ARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLG 344
N + +I MDE+D + + DR L + +
Sbjct: 140 EE------AQNLNGKHFVIIMDEVDGM--------SGGDRGGVGQLAQFCRK-------T 178
Query: 345 QVKMIMATNRPDTLDPALLRPGRLDRKIEI----PLPNEQ--ARLAHTWPISIHAGPIAK 398
+I+ N + P +RP DR +RL IA
Sbjct: 179 STPLILICN--ERNLPK-MRP--FDRVCLDIQFRRPDANSIKSRLMT----------IAI 223
Query: 399 HG--EIDYEAVVKLSDSFNGADLRNV 422
++D + +L + G D+R V
Sbjct: 224 REKFKLDPNVIDRLIQTTRG-DIRQV 248
>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 = 62.1 bits (150), Expect = 2e-10
Identities = 44/338 (13%), Positives = 100/338 (29%), Gaps = 49/338 (14%)
Query: 178 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 237
+Q+++L ++ + G P L G PGTGKT+ R +
Sbjct: 24 QQLQQLDILLG------NWLRNPGHHYP-RATLLGRPGTGKTVTLRKLWELYK------- 69
Query: 238 SSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARN 297
K + N R+ + + + + L + +
Sbjct: 70 ------DKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRER 123
Query: 298 HQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNR--- 354
+ +D+ + +I T + L + D + ++ +++ +
Sbjct: 124 DLYMFLVLDDAFNLA-----------PDILSTFIRLGQEADKLGA-FRIALVIVGHNDAV 171
Query: 355 PDTLDPALLRPGRLDRKIEIPLPNEQ------ARLAHTWPI-SIHAGPIAKHGEIDYEAV 407
+ LDP+ P +Q R S + +I
Sbjct: 172 LNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQT 231
Query: 408 VKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHCNSYRTE-- 465
++ + ++ + A ++ R+++ ED K+ ++V +
Sbjct: 232 PLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKEVLFGISEEVLIGLPLHEK 291
Query: 466 AGLFAI-----RSEREYVTQEDFMKAVRKVSDNKKLES 498
L AI S Y+T D ++ + V +
Sbjct: 292 LFLLAIVRSLKISHTPYITFGDAEESYKIVCEEYGERP 329
Score = 47.5 bits (112), Expect = 1e-05
Identities = 26/193 (13%), Positives = 55/193 (28%), Gaps = 36/193 (18%)
Query: 523 PPKGCLLYGPPGTGKTLLARAVASQLDANF-LKVV---------SSAIVDKYI------- 565
L G PGTGKT+ R + + V +AI+ +
Sbjct: 43 HYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPF 102
Query: 566 ---GESARLIREMF--NYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ 620
G S + + + +D+ + +I T + L +
Sbjct: 103 PRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLA-----------PDILSTFIRLGQE 151
Query: 621 MDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLP--NEQARLEILKIHAGPIA 678
D + ++ +++ + L+ + K I + +IL A
Sbjct: 152 ADKLGA-FRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGL 210
Query: 679 KHGEIGDAATKWV 691
G + + +
Sbjct: 211 AEGSYSEDILQMI 223
>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 = 63.5 bits (154), Expect = 2e-10
Identities = 95/502 (18%), Positives = 161/502 (32%), Gaps = 150/502 (29%)
Query: 14 LQD-YRKKLTEHAEVEGRLREMREQLKELTKQY-----DKSENDLKALQSVGQHDLLLHC 67
LQ+ + K L E E E EL ++ E VGQ D +L+
Sbjct: 33 LQEQFNKILPEPTEGFAADDEPTTPA-ELVGKFLGYVSSLVEP-----SKVGQFDQVLNL 86
Query: 68 VREQLKELTKQYDKSENDLKALQSVGQVSLSTSVSKCWTVIVKATNGPRYVVGC---RRQ 124
L E Y ND+ AL + T++ K +I K Y+ +R
Sbjct: 87 C---LTEFENCY-LEGNDIHALAAKLLQENDTTLVKTKELI-KN-----YITARIMAKRP 136
Query: 125 LDK----AKLKSGTRVALDMTTL-----TIMRYLP--REVDPLVYNMSHEDPGDITYSAI 173
DK A ++ + + Y R++ Y H GD+ +
Sbjct: 137 FDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDL----YQTYHVLVGDLIKFSA 192
Query: 174 GGLSEQIRELREVIELPLLNPELFQRVGI-----------TPPKGCLLYGP---PGTGKT 219
LSE IR + ++F + G+ TP K LL P P G
Sbjct: 193 ETLSELIRTTLDA-------EKVFTQ-GLNILEWLENPSNTPDKDYLLSIPISCPLIGVI 244
Query: 220 LLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIV-- 277
QL A+++ L T E + L G +T H + +A+
Sbjct: 245 --------QL-AHYVVTAKLLGFTPGELRSYLKG------ATGHSQGLV-----TAVAIA 284
Query: 278 -----DKYIGESARLIREMFNY--ARNHQ--PCIIFMDEI--DAIGGRRFSEGTSA---- 322
+ + + I +F + R ++ P I D++ +EG +
Sbjct: 285 ETDSWESFFVSVRKAITVLF-FIGVRCYEAYPNTSLPPSILEDSLEN---NEGVPSPMLS 340
Query: 323 ----DREIQRTLMELLNQMDGFDSLGQVKMIMAT--NRPDTL----DPALLRPGRLD--- 369
+E + + N L K + + N L P L L+
Sbjct: 341 ISNLTQEQVQDYVNKTNS-----HLPAGKQVEISLVNGAKNLVVSGPPQSLY--GLNLTL 393
Query: 370 RKIEIPLPNEQARLAHTW----------PISI--H------AGPIAKH----GEIDYEAV 407
RK + P +Q+R+ + P++ H A + + + A
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAK 453
Query: 408 VKLS----DSFNGADLRNVCTE 425
+ D+F+G+DLR +
Sbjct: 454 -DIQIPVYDTFDGSDLRVLSGS 474
Score = 62.0 bits (150), Expect = 7e-10
Identities = 78/465 (16%), Positives = 134/465 (28%), Gaps = 204/465 (43%)
Query: 225 VASQLDANFLKVV-------------SSL---------FVTSKED--------------- 247
+ASQL F K++ ++ +V+S +
Sbjct: 29 IASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCL 88
Query: 248 ----MAILMGN-------------QLKRRSTHHLEKTYF--------PF---YSSAIVDK 279
L GN T L K Y PF +SA+
Sbjct: 89 TEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRA 148
Query: 280 YIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSAD-----REIQRT----L 330
+A+L A IF GG +G + D R++ +T +
Sbjct: 149 VGEGNAQL------VA-------IF-------GG----QGNTDDYFEELRDLYQTYHVLV 184
Query: 331 MELLNQMDG-FDSLGQVKMIMATNRPDTLDPA--LLRPGRLDRKIEIPLPNEQARLAHTW 387
+L+ L + + L+ L P P++ L
Sbjct: 185 GDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS--------NTPDKDY-LLSI- 234
Query: 388 PISIHAGPI-----AKHGEIDYEAVVKLSDSFNGADLRN------VCTE----AGLFAIR 432
PIS P+ H Y KL F +LR+ ++ A A
Sbjct: 235 PISC---PLIGVIQLAH----YVVTAKLLG-FTPGELRSYLKGATGHSQGLVTAVAIAET 286
Query: 433 SEREYVTQEDFMKAVRKVSDNKKLDHCNSYRTEAGLFAI--RSEREY--------VTQED 482
+ E F +VRK LF I R Y + ++
Sbjct: 287 D-----SWESFFVSVRKAITV--------------LFFIGVRCYEAYPNTSLPPSILEDS 327
Query: 483 ---------FMKAVRKVSDNKKLESKLD----YKP---VIELPLLN-PELFQRVGIT-PP 524
M ++ ++ ++++ ++ + P +E+ L+N + V ++ PP
Sbjct: 328 LENNEGVPSPMLSISNLTQ-EQVQDYVNKTNSHLPAGKQVEISLVNGAKNL--V-VSGPP 383
Query: 525 KGCLLYG----------PPGTGKTLLARAVASQ----LDANFLKV 555
+ LYG P G ++ R S+ FL V
Sbjct: 384 QS--LYGLNLTLRKAKAPSGLDQS---RIPFSERKLKFSNRFLPV 423
Score = 55.8 bits (134), Expect = 5e-08
Identities = 81/417 (19%), Positives = 135/417 (32%), Gaps = 122/417 (29%)
Query: 317 SEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPL 376
+EG +AD E T EL+ + G+ + + P G+ D+ + + L
Sbjct: 45 TEGFAADDE-PTTPAELVGKFLGY--------VSSLVEPSK-------VGQFDQVLNLCL 88
Query: 377 PN-EQARLAHTWPISIHA----------GPIAKHGEID---YEAVVKLSDSFNGAD---- 418
E L IHA + K E+ A + F+
Sbjct: 89 TEFENCYLEGN---DIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSAL 145
Query: 419 LRNVCT-EAGLFAI-----RSE------RE-YVTQEDFMKAVRKVSDNKKLDHCNSYRTE 465
R V A L AI ++ R+ Y T + + K S + L +
Sbjct: 146 FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSA-ETLSELIRTTLD 204
Query: 466 AGLFAIRSEREYVTQEDFMKAVRKVSDNKKLESKLDYKPVIELPLLNPELFQ-------- 517
A E+ + + ++ + S+ + L P+ PL+ + Q
Sbjct: 205 A-------EKVFTQGLNILEWLENPSNTPD-KDYLLSIPI-SCPLI--GVIQLAHYVVTA 253
Query: 518 -RVGITPPKGCL---LYGPPGTGKTLL-ARAVASQLD-ANFLKVVSSAI-VDKYIGESAR 570
+G TP G L L G G + L+ A A+A +F V AI V +IG
Sbjct: 254 KLLGFTP--GELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIG---- 307
Query: 571 LIREMFNYARNHQ--PCIIFMDEI--DAIGGRRFSEGTSA--------DREIQRTLMELL 618
R ++ P I D++ +EG + +E + +
Sbjct: 308 --------VRCYEAYPNTSLPPSILEDSLEN---NEGVPSPMLSISNLTQEQVQDYVNKT 356
Query: 619 NQMDGFDSLGQVKMIMAT--NRPDTL----DPALLRPGRLD---RKIEIPLPNEQAR 666
N L K + + N L P L L+ RK + P +Q+R
Sbjct: 357 NS-----HLPAGKQVEISLVNGAKNLVVSGPPQSLY--GLNLTLRKAKAPSGLDQSR 406
Score = 43.1 bits (101), Expect = 4e-04
Identities = 63/386 (16%), Positives = 116/386 (30%), Gaps = 144/386 (37%)
Query: 388 PISIHAGPIAKHGEIDYEAVVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAV 447
P+++ HG +++ +V + F + L+ E F K +
Sbjct: 8 PLTLS------HGSLEHVLLVPTASFFIASQLQ--------------------EQFNKIL 41
Query: 448 RKVSDNKKLDHCNSYRTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLESKLDYKPVIE 507
+ ++ D + T A L F+ V + + K+ + V+
Sbjct: 42 PEPTEGFAAD--DEPTTPAELVG-----------KFLGYVSSLVEPSKVGQ---FDQVLN 85
Query: 508 LPLLNPELFQRVGITPPKGCLLYG----------PPGTGKTLL-----------ARAVAS 546
L L F+ C L G TL+ AR +A
Sbjct: 86 LCLTE---FEN--------CYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAK 134
Query: 547 QLDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSA 606
+ F K +SA+ +A+L A IF GG +G +
Sbjct: 135 R---PFDKKSNSALFRAVGEGNAQL------VA-------IF-------GG----QGNTD 167
Query: 607 D-----REIQRT----LMELLNQMDG-FDSLGQVKMIMATNRPDTLDPA--LLRPGRLDR 654
D R++ +T + +L+ L + + L+ L P
Sbjct: 168 DYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPS---- 223
Query: 655 KIEIPLPNEQARLEILKIHAGPIAKHGEIGDAATKWVLPFTAGGFIYIATVSVIPELLED 714
P++ + L + PI+ P G I +A V +LL
Sbjct: 224 ----NTPDK----DYL-LSI-PIS-------------CPLI--GVIQLAHYVVTAKLL-G 257
Query: 715 TSPKQTVKEILALLLGVFMMVIIATF 740
+P + ++ L G ++ A
Sbjct: 258 FTPGE-LRSYLKGATGHSQGLVTAVA 282
Score = 41.6 bits (97), Expect = 0.001
Identities = 43/221 (19%), Positives = 64/221 (28%), Gaps = 87/221 (39%)
Query: 517 QRVGITPPKGCLLYGPPGTGKTLLARA---VASQLDANFLKVVSSAIVDKYI---GESAR 570
Q G+ G LY + + RA + L +V + V+ I GE +
Sbjct: 1627 QEQGM----GMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGK 1682
Query: 571 LIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQV 630
IRE NY A+ +G +I + + E F S
Sbjct: 1683 RIRE--NY--------------SAMIFETIVDGKLKTEKIFKEINEHSTSYT-FRS---- 1721
Query: 631 KMIMATNRP-DTLD------PALLRPGRLDRKIEIPLPNEQARLEILKIHAGPI------ 677
L PAL +E A E LK G I
Sbjct: 1722 --------EKGLLSATQFTQPALT-------LMEK------AAFEDLK-SKGLIPADATF 1759
Query: 678 AKH--GEIGDAATKWVLPFTAGGFIYIATVS-VIPELLEDT 715
A H GE + A +A+++ V+ +E
Sbjct: 1760 AGHSLGE-----------YAA-----LASLADVMS--IESL 1782
Score = 34.3 bits (78), Expect = 0.19
Identities = 47/337 (13%), Positives = 94/337 (27%), Gaps = 135/337 (40%)
Query: 39 KELTKQYDKSEN--------DLKALQSVGQHDLLLHCVREQLKELT------------KQ 78
+L Y S+ D + G +L V LT +
Sbjct: 1633 MDL---YKTSKAAQDVWNRADNHFKDTYGFS--ILDIVINNPVNLTIHFGGEKGKRIREN 1687
Query: 79 YDK------SENDLKALQSVGQVSLSTSVSKCWTVIVKATNGPRYVVGCRRQLDKAKLKS 132
Y + LK + +++ ++ S + +
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINEHST-SYTF-------RSEK---------GLLSATQ 1730
Query: 133 GTRVALDMTT-LTIMRYLPRE---VDPLVYNMSH---EDPGDITYSAIGGLSEQIRELRE 185
T+ AL L + + H E Y+A+ L++ + +
Sbjct: 1731 FTQPAL-TLMEKAAFEDL-KSKGLIPADATFAGHSLGE------YAALASLADVM-SIES 1781
Query: 186 VIELPLLNPELFQRVGIT----PPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLF 241
++E+ +F R G+T P+ G + A+ N +V +S
Sbjct: 1782 LVEV------VFYR-GMTMQVAVPR-----DELGRSNYGMI-AI------NPGRVAASF- 1821
Query: 242 VTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNY-ARNHQP 300
S+E + ++ ++ +R+ +E IV NY N Q
Sbjct: 1822 --SQEALQYVV-ERVGKRTGWLVE----------IV---------------NYNVENQQ- 1852
Query: 301 CIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQM 337
+ G + T+ +LN +
Sbjct: 1853 -YV-------AA------GDLRALD---TVTNVLNFI 1872
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 58.7 bits (143), Expect = 3e-09
Identities = 24/71 (33%), Positives = 39/71 (54%), Gaps = 15/71 (21%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKV--VSSAIVDKYIGESARLIREMFNYARNH--- 582
+L+GPPGTGKT LA +A +A+ ++ V+S + + IRE AR +
Sbjct: 54 ILWGPPGTGKTTLAEVIARYANADVERISAVTSGVKE---------IREAIERARQNRNA 104
Query: 583 -QPCIIFMDEI 592
+ I+F+DE+
Sbjct: 105 GRRTILFVDEV 115
Score = 46.4 bits (111), Expect = 2e-05
Identities = 15/33 (45%), Positives = 23/33 (69%), Gaps = 2/33 (6%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKV--VSS 239
+L+GPPGTGKT LA +A +A+ ++ V+S
Sbjct: 54 ILWGPPGTGKTTLAEVIARYANADVERISAVTS 86
>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 = 58.5 bits (141), Expect = 4e-09
Identities = 33/165 (20%), Positives = 57/165 (34%), Gaps = 26/165 (15%)
Query: 523 PPKGCLLYGPPGTGKTLLARAVASQLDAN--FLKVVSSAIVDKYIGESARLIREMFNYA- 579
+ LL GPPGTGKT LA A+A +L + F +V S + I ++ L E F A
Sbjct: 62 AGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVL-MENFRRAI 120
Query: 580 --RNHQPCIIFMDEIDAIGGRR---------------FSEGTSADREIQRTLMELLNQM- 621
R + ++ E+ + +A Q L + +
Sbjct: 121 GLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESL 180
Query: 622 --DGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIE--IPLPN 662
+ ++ + + + D + E +PLP
Sbjct: 181 QKERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPK 225
Score = 48.8 bits (116), Expect = 5e-06
Identities = 34/182 (18%), Positives = 57/182 (31%), Gaps = 25/182 (13%)
Query: 204 PPKGCLLYGPPGTGKTLLARAVASQLDAN---FLKVVSSLFVTSKEDMAILMGNQLKRRS 260
+ LL GPPGTGKT LA A+A +L + V S ++ T + +LM + RR+
Sbjct: 62 AGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLM--ENFRRA 119
Query: 261 THHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGT 320
K Y GE L I T
Sbjct: 120 IGLRIKETKEV--------YEGEVTELTPCETE--------NPMGGYGKTISHVIIGLKT 163
Query: 321 SADREIQRTLMELLNQM--DGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIE--IPL 376
+ + + + + + ++ + + + D + E +PL
Sbjct: 164 AKGTKQLKLDPSIFESLQKERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPL 223
Query: 377 PN 378
P
Sbjct: 224 PK 225
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 55.6 bits (133), Expect = 3e-08
Identities = 50/288 (17%), Positives = 89/288 (30%), Gaps = 30/288 (10%)
Query: 178 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 237
++R L EV+ P L E P LLYG GTGKT +AR V +L
Sbjct: 26 AELRRLAEVLA-PALRGE--------KPSNALLYGLTGTGKTAVARLVLRRL-------- 68
Query: 238 SSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARN 297
+ + + + N R + + + + + R + +R
Sbjct: 69 EARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRL 128
Query: 298 HQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDT 357
II +DEID + R Q L + V ++ TN
Sbjct: 129 RGIYIIVLDEIDFLPKR---------PGGQDLLYRITRINQELGDRVWVSLVGITNSLGF 179
Query: 358 LDPALLR-PGRLDRKIEIPLPNEQARLAHTWPISIHAG---PIAKHGEIDYEAVVKLSDS 413
++ R L + P +L + + A + +
Sbjct: 180 VENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLCAALAAREH 239
Query: 414 FNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHCNS 461
+ ++ AG A R E V +E A ++ ++ + +
Sbjct: 240 GDARRALDLLRVAGEIAERRREERVRREHVYSARAEIERDRVSEVVRT 287
Score = 41.0 bits (95), Expect = 0.001
Identities = 40/199 (20%), Positives = 59/199 (29%), Gaps = 40/199 (20%)
Query: 523 PPKGCLLYGPPGTGKTLLARAVASQLDA--------------NFLKVVSSAIVDKYIGES 568
P LLYG GTGKT +AR V +L+A N + V I E+
Sbjct: 43 KPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEA 102
Query: 569 ------------ARLIREMFNYARNHQ-PCIIFMDEIDAIGGRRFSEGTSADREIQRTLM 615
+ + + II +DEID + R Q L
Sbjct: 103 VGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKR---------PGGQDLLY 153
Query: 616 ELLNQMDGFDSLGQVKMIMATNRPD---TLDPALLRPGRLDRKIEIPLPNEQARLEILKI 672
+ V ++ TN L+P + + P Q R +IL+
Sbjct: 154 RITRINQELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLR-DILET 212
Query: 673 HAGPIAKHGEIGDAATKWV 691
A G +
Sbjct: 213 RAEEAFNPGVLDPDVVPLC 231
>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 = 51.5 bits (124), Expect = 3e-07
Identities = 34/104 (32%), Positives = 53/104 (50%), Gaps = 8/104 (7%)
Query: 523 PPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVD-KYIG--ESARLIR--EMFN 577
PK L+ GP G GKT +AR +A +A F+KV ++ + Y+G + + +
Sbjct: 49 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAG 108
Query: 578 YARNH--QPCIIFMDEIDAIGGRRFSEGTSADRE-IQRTLMELL 618
A + Q I+F+DEID I + G RE +QR L+ L+
Sbjct: 109 GAIDAVEQNGIVFIDEIDKICKKGEYSGADVSREGVQRDLLPLV 152
Score = 41.5 bits (98), Expect = 7e-04
Identities = 33/136 (24%), Positives = 51/136 (37%), Gaps = 37/136 (27%)
Query: 204 PPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHH 263
PK L+ GP G GKT +AR +A +A F+KV T ++ +
Sbjct: 49 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVE----ATKFTEVGYVGKE--------- 95
Query: 264 LEKTYFPFYSSAIVDKYIGESARLIR--EMFNYARNH--QPCIIFMDEIDAIGGRRFSEG 319
+ + + A + Q I+F+DEID I + G
Sbjct: 96 -------------------VDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKGEYSG 136
Query: 320 TSADRE-IQRTLMELL 334
RE +QR L+ L+
Sbjct: 137 ADVSREGVQRDLLPLV 152
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 47.0 bits (112), Expect = 2e-05
Identities = 31/174 (17%), Positives = 59/174 (33%), Gaps = 46/174 (26%)
Query: 527 CLLYGPPGTGKTLLARAVASQL-DANFLKV------VSSAIVDKYIG-ESARLIREMFNY 578
L GPPG K+L+AR + +A + + G S + +++ Y
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEV----FGPLSIQALKDEGRY 99
Query: 579 ARNHQPC-----IIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ----MDGFD-SLG 628
R I+F+DEI + I TL+ +N+ +
Sbjct: 100 ERLTSGYLPEAEIVFLDEIW----K-----AGP--AILNTLLTAINERQFRNGAHVEKIP 148
Query: 629 QVKMIMATNRP----DTLDPALLRPGRLDR---KIEIPLPNEQARLEILKIHAG 675
++ A+N +L+ AL DR ++ + ++A +
Sbjct: 149 MRLLVAASNELPEADSSLE-AL-----YDRMLIRLWLDKVQDKANFRSMLTSQQ 196
Score = 41.3 bits (97), Expect = 0.001
Identities = 10/30 (33%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 208 CLLYGPPGTGKTLLARAVASQL-DANFLKV 236
L GPPG K+L+AR + +A +
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAFEY 73
>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 = 46.5 bits (111), Expect = 2e-05
Identities = 35/94 (37%), Positives = 46/94 (48%), Gaps = 22/94 (23%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK-------YIGES-----ARLIREM 575
LL GP G+GKTL+A+ +A LD AI D Y+GE RL++
Sbjct: 76 LLIGPTGSGKTLMAQTLAKHLDIPI------AISDATSLTEAGYVGEDVENILTRLLQAS 129
Query: 576 -FNYARNHQPCIIFMDEIDAIGGRRFSEGTSADR 608
+N + Q I+F+DEID I R SE S R
Sbjct: 130 DWNVQKA-QKGIVFIDEIDKIS--RLSENRSITR 160
Score = 35.3 bits (82), Expect = 0.073
Identities = 13/25 (52%), Positives = 17/25 (68%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANF 233
LL GP G+GKTL+A+ +A LD
Sbjct: 76 LLIGPTGSGKTLMAQTLAKHLDIPI 100
>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 = 46.0 bits (110), Expect = 3e-05
Identities = 30/94 (31%), Positives = 46/94 (48%), Gaps = 22/94 (23%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK-------YIGES-----ARLIREM 575
LL GP G+GKTLLA +A LD F + D Y+GE +L+++
Sbjct: 55 LLIGPTGSGKTLLAETLARLLDVPF------TMADATTLTEAGYVGEDVENIIQKLLQKC 108
Query: 576 -FNYARNHQPCIIFMDEIDAIGGRRFSEGTSADR 608
++ + Q I+++D+ID I R S+ S R
Sbjct: 109 DYDVQKA-QRGIVYIDQIDKIS--RKSDNPSITR 139
Score = 34.9 bits (81), Expect = 0.079
Identities = 15/25 (60%), Positives = 17/25 (68%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANF 233
LL GP G+GKTLLA +A LD F
Sbjct: 55 LLIGPTGSGKTLLAETLARLLDVPF 79
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 46.2 bits (110), Expect = 3e-05
Identities = 54/357 (15%), Positives = 98/357 (27%), Gaps = 88/357 (24%)
Query: 199 RVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKR 258
+ + LL G PGTGK++L +A+A L L+ + E+M + +
Sbjct: 54 KTAANQKRHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPEDENMPRIKTVPACQ 113
Query: 259 RSTHHLEKTYFP-----------------FYSSAIVDKYIGESARLIREMFNYARN---- 297
+ +VD A I +A
Sbjct: 114 GRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKAPFIDATGAHAGALLGD 173
Query: 298 --HQPC------------------------IIFMDEIDAIGGRRFSEGTSADREIQRTLM 331
H P ++F+DEI + + + +Q
Sbjct: 174 VRHDPFQSGGLGTPAHERVEPGMIHRAHKGVLFIDEIATLS-LKMQQSLL--TAMQEKKF 230
Query: 332 ELLNQMDGFDS--------LGQVKMIMATNR--PDTLDPALLRPGRLDRKIEIPLP---- 377
+ Q + ++ A N D + PAL R
Sbjct: 231 PITGQSEMSSGAMVRTEPVPCDFVLVAAGNLDTVDKMHPALR-----SRIRGYGYEVYMR 285
Query: 378 -----NEQARLAHTWPISIHAGPIAKHGEIDYEAVVKLSD------------SFNGADLR 420
+ R ++ K EAV ++ + DL
Sbjct: 286 TTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLG 345
Query: 421 NVCTEAGLFAIRSEREYVTQEDFMKAV--RKVSDNKKLDHCNSYRTEAGLFAIRSER 475
+ AG A++ ++YV +ED ++AV K + + D + E +
Sbjct: 346 GIVRAAGDIAVKKGKKYVEREDVIEAVKMAKPLEKQLADWYIERKKEYQVIKTEGSE 402
Score = 38.5 bits (90), Expect = 0.007
Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 11/81 (13%)
Query: 485 KAVRKVSDNKKLESKLDYKPVIELPLLNPELFQ-----------RVGITPPKGCLLYGPP 533
+A+ + LE +++ E+ + + Q + + LL G P
Sbjct: 10 EALAPREYGESLELGIEFTTTEEIEVPEKLIDQVIGQEHAVEVIKTAANQKRHVLLIGEP 69
Query: 534 GTGKTLLARAVASQLDANFLK 554
GTGK++L +A+A L L+
Sbjct: 70 GTGKSMLGQAMAELLPTETLE 90
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 43.5 bits (102), Expect = 2e-04
Identities = 17/132 (12%), Positives = 39/132 (29%), Gaps = 3/132 (2%)
Query: 209 LLYGPPGTGKTLLARAVASQLDA---NFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLE 265
LL G GK+ L RA ++ + ++ + ++E++ + + + +
Sbjct: 35 LLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIKELQSTISPFQKFQSK 94
Query: 266 KTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADRE 325
++ + RE+ + I+ DE + G
Sbjct: 95 FKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELLAL 154
Query: 326 IQRTLMELLNQM 337
L N
Sbjct: 155 FAYAYDSLPNLK 166
Score = 30.8 bits (69), Expect = 1.8
Identities = 17/93 (18%), Positives = 31/93 (33%), Gaps = 1/93 (1%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQPCII 587
LL G GK+ L RA ++ + ++ LI+E+ + Q
Sbjct: 35 LLLGIRRVGKSSLLRAFLNERPGILI-DCRELYAERGHITREELIKELQSTISPFQKFQS 93
Query: 588 FMDEIDAIGGRRFSEGTSADREIQRTLMELLNQ 620
+ + RE+ R L +L +
Sbjct: 94 KFKISLNLKFLTLEPRKLSLREVFRELNDLGEE 126
>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 = 42.2 bits (100), Expect = 4e-04
Identities = 20/52 (38%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRR 259
LL+GPPG GKT LA +A +L N +V S + D+A ++ N L+
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNL-RVTSGPAIEKPGDLAAILANSLEEG 91
Score = 40.2 bits (95), Expect = 0.002
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK 563
LL+GPPG GKT LA +A +L N +V S ++K
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNL-RVTSGPAIEK 76
>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 = 41.8 bits (98), Expect = 6e-04
Identities = 24/140 (17%), Positives = 43/140 (30%), Gaps = 11/140 (7%)
Query: 201 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGN--QLKR 258
G L G GTGKTLL AN + + +E A L+ N
Sbjct: 277 GFFKDSIILATGATGTGKTLLVSRFVENACANKERA---ILFAYEESRAQLLRNAYSWGM 333
Query: 259 RSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSE 318
+ + + + ++I+ + +P I ID++
Sbjct: 334 DFEEMERQNLLKIVCAYPESAGLEDHLQIIKSE---INDFKPARIA---IDSLSALARGV 387
Query: 319 GTSADREIQRTLMELLNQMD 338
+A R+ + Q +
Sbjct: 388 SNNAFRQFVIGVTGYAKQEE 407
Score = 37.2 bits (86), Expect = 0.017
Identities = 25/151 (16%), Positives = 49/151 (32%), Gaps = 23/151 (15%)
Query: 201 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRR- 259
G+ + L+ G GTGKTL + F + +FVT +E + +
Sbjct: 35 GLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPG--VFVTFEETPQ-----DIIKNA 87
Query: 260 -------STHHLEKTYFPFYSSAIVDKYIGESA----RLIREMFNYARNHQPCIIFMDEI 308
+ E F +S + LI + + ++ + +D +
Sbjct: 88 RSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVSIDSV 147
Query: 309 DAIGGRRFSEGTSAD-REIQRTLMELLNQMD 338
++ S+ R L+ L Q+
Sbjct: 148 TSV---FQQYDASSVVRRELFRLVARLKQIG 175
Score = 33.0 bits (75), Expect = 0.38
Identities = 12/37 (32%), Positives = 14/37 (37%)
Query: 520 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
G L G GTGKTLL AN + +
Sbjct: 277 GFFKDSIILATGATGTGKTLLVSRFVENACANKERAI 313
Score = 32.6 bits (74), Expect = 0.47
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 520 GITPPKGCLLYGPPGTGKTLLA 541
G+ + L+ G GTGKTL +
Sbjct: 35 GLPIGRSTLVSGTSGTGKTLFS 56
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 41.0 bits (97), Expect = 0.001
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK 563
L GP G GKT LA ++ ++ AN K ++ +++K
Sbjct: 58 ILFSGPAGLGKTTLANIISYEMSANI-KTTAAPMIEK 93
Score = 40.2 bits (95), Expect = 0.002
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANF 233
L GP G GKT LA ++ ++ AN
Sbjct: 58 ILFSGPAGLGKTTLANIISYEMSANI 83
>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 = 39.9 bits (93), Expect = 0.001
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 201 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFL 234
G+ P ++ G P TGKT L++A+A+ L L
Sbjct: 1 GMQTPALIIVTGHPATGKTTLSQALATGLRLPLL 34
Score = 39.9 bits (93), Expect = 0.001
Identities = 13/34 (38%), Positives = 20/34 (58%)
Query: 520 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFL 553
G+ P ++ G P TGKT L++A+A+ L L
Sbjct: 1 GMQTPALIIVTGHPATGKTTLSQALATGLRLPLL 34
>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 = 40.3 bits (95), Expect = 0.001
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 209 LLYGPPGTGKTLLARAVASQL 229
L GPPGTGKT A A+A L
Sbjct: 42 LFSGPPGTGKTATAIALARDL 62
Score = 40.3 bits (95), Expect = 0.001
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 528 LLYGPPGTGKTLLARAVASQL 548
L GPPGTGKT A A+A L
Sbjct: 42 LFSGPPGTGKTATAIALARDL 62
>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 = 41.4 bits (97), Expect = 0.001
Identities = 63/400 (15%), Positives = 125/400 (31%), Gaps = 97/400 (24%)
Query: 206 KGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLE 265
+ +L GPPG+GKT+ + + ++ T+ E + + + + T E
Sbjct: 1305 RPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGE 1364
Query: 266 KTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADRE 325
P + K+ ++F DEI+ ++ GT
Sbjct: 1365 TVLRP----TQLGKW--------------------LVVFCDEINLPSTDKY--GTQRVIT 1398
Query: 326 IQRTLMELLNQMDG----FDSLGQVKMIMATNRPD-----TLDPALLRPGRLDRKIEIPL 376
R ++E + L +++ + A N P L LR + + +
Sbjct: 1399 FIRQMVEKGGFWRTSDHTWIKLDKIQFVGACNPPTDAGRVQLTHRFLRHAPI---LLVDF 1455
Query: 377 PNE-----------QARLAHTWPISIHAGPIAKHGEIDYEAVVK--LSDS-----FNGAD 418
P+ +A + + A + Y K D ++ +
Sbjct: 1456 PSTSSLTQIYGTFNRALMKLLPNLRSFADNLTDAMVEFYSESQKRFTPDIQAHYIYSPRE 1515
Query: 419 LRNVCTEAGLFAIRSEREYVTQEDFMKAV-----------------RKVSDNKKLDHCNS 461
L L + T E ++ ++ +D K +
Sbjct: 1516 LSRWDR--ALLEAIQTMDGCTLEGLVRLWAHEALRLFQDRLVETEEKEWTDKKIDEVALK 1573
Query: 462 YRTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLESKLD------YKPVIELPLLNPEL 515
+ L A++ Y +++ + + L + Y+ +++PL+ L
Sbjct: 1574 HFPSVNLDALKRPILYS---NWLTKDYQPVNRSDLREYVKARLKVFYEEELDVPLV---L 1627
Query: 516 FQ----------RVGITPPKGCLLYGPPGTGKTLLARAVA 545
F RV P LL G G GK++L+R VA
Sbjct: 1628 FNEVLDHILRIDRVFRQPQGHALLIGVSGGGKSVLSRFVA 1667
Score = 40.3 bits (94), Expect = 0.003
Identities = 19/105 (18%), Positives = 35/105 (33%), Gaps = 17/105 (16%)
Query: 525 KGCLLYGPPGTGKTLLARAVASQLDA------NFLKVVSSAIVDKYIGESARLIREMFNY 578
+ +L GPPG+GKT+ + NF + ++ K +
Sbjct: 1305 RPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTF--DHHCEYKRTPS 1362
Query: 579 ARNHQP-------CIIFMDEIDAIGGRRFSEGTSADREIQRTLME 616
++F DEI+ ++ GT R ++E
Sbjct: 1363 GETVLRPTQLGKWLVVFCDEINLPSTDKY--GTQRVITFIRQMVE 1405
>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 = 40.2 bits (95), Expect = 0.002
Identities = 18/37 (48%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK 563
LL GPPG GKT LA +AS+L N V S ++ K
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNI-HVTSGPVLVK 89
Score = 39.9 bits (94), Expect = 0.002
Identities = 15/26 (57%), Positives = 17/26 (65%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANF 233
LL GPPG GKT LA +AS+L N
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNI 79
>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 = 39.3 bits (92), Expect = 0.002
Identities = 17/63 (26%), Positives = 25/63 (39%), Gaps = 2/63 (3%)
Query: 204 PPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHH 263
KG G PG GKT LA A + K + F +K+ + L + + T
Sbjct: 37 EGKGLTFVGSPGVGKTHLAVATLKAIYEK--KGIRGYFFDTKDLIFRLKHLMDEGKDTKF 94
Query: 264 LEK 266
L+
Sbjct: 95 LKT 97
Score = 37.0 bits (86), Expect = 0.008
Identities = 11/26 (42%), Positives = 12/26 (46%)
Query: 523 PPKGCLLYGPPGTGKTLLARAVASQL 548
KG G PG GKT LA A +
Sbjct: 37 EGKGLTFVGSPGVGKTHLAVATLKAI 62
>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 = 40.0 bits (94), Expect = 0.002
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 209 LLYGPPGTGKTLLARAVASQL 229
L GPPGTGKT A A+A L
Sbjct: 42 LFSGPPGTGKTATAIALARDL 62
Score = 40.0 bits (94), Expect = 0.002
Identities = 13/21 (61%), Positives = 14/21 (66%)
Query: 528 LLYGPPGTGKTLLARAVASQL 548
L GPPGTGKT A A+A L
Sbjct: 42 LFSGPPGTGKTATAIALARDL 62
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 39.8 bits (93), Expect = 0.002
Identities = 15/57 (26%), Positives = 24/57 (42%), Gaps = 2/57 (3%)
Query: 195 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAIL 251
+ ++ KG LYG G GK+ L A+A +L K VS+ + +
Sbjct: 142 DFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEK--KGVSTTLLHFPSFAIDV 196
Score = 38.7 bits (90), Expect = 0.005
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 514 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQL 548
+ ++ KG LYG G GK+ L A+A +L
Sbjct: 142 DFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHEL 176
>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 = 39.7 bits (93), Expect = 0.002
Identities = 29/78 (37%), Positives = 39/78 (50%), Gaps = 17/78 (21%)
Query: 528 LLYGPPGTGKTLLARAVASQL-----DANFLKVVSSAIVDKYIGESARLIREMF-NYARN 581
L GPPG GKT A A+A +L NFL++ +S ++ I +IRE +AR
Sbjct: 50 LFAGPPGVGKTTAALALARELFGENWRHNFLELNAS--DERGIN----VIREKVKEFART 103
Query: 582 HQ-PC----IIFMDEIDA 594
IIF+DE DA
Sbjct: 104 KPIGGASFKIIFLDEADA 121
Score = 39.3 bits (92), Expect = 0.003
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 209 LLYGPPGTGKTLLARAVASQL 229
L GPPG GKT A A+A +L
Sbjct: 50 LFAGPPGVGKTTAALALAREL 70
>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 = 38.7 bits (89), Expect = 0.005
Identities = 19/185 (10%), Positives = 49/185 (26%), Gaps = 31/185 (16%)
Query: 178 EQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 237
E + I L++ + K + + K L V +L + +
Sbjct: 27 EDFTRIFLPIYDSLMSSQ---------NKLFYITNADDSTKFQLVNDVMDELITSSARKE 77
Query: 238 SSLFVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARN 297
+F + + L+ L + + S + I A
Sbjct: 78 LPIF-------DYIHIDALELAGMDALYEKIWFAISKENLCGDISLEALNFYITNVPKAK 130
Query: 298 HQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDT 357
+ +I + + + ++ L + +S ++ +I T
Sbjct: 131 KRKTLILIQNPENLLS-------------EKILQYFEKWISSKNS--KLSIICVGGHNVT 175
Query: 358 LDPAL 362
+ +
Sbjct: 176 IREQI 180
Score = 36.8 bits (84), Expect = 0.021
Identities = 10/125 (8%), Positives = 33/125 (26%), Gaps = 16/125 (12%)
Query: 488 RKVSDNKKLESKLDYKPVI-----ELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLAR 542
++ + + L + ++ + + ++ + + K + + K L
Sbjct: 4 ADINLEESIRESLQKRELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVN 63
Query: 543 AVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSE 602
V +L + + +I + ++ AI
Sbjct: 64 DVMDELITSSARKELPIFDYIHI-----------DALELAGMDALYEKIWFAISKENLCG 112
Query: 603 GTSAD 607
S +
Sbjct: 113 DISLE 117
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 37.7 bits (88), Expect = 0.006
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 202 ITPPKGCLLYGPPGTGKTLLARAVASQL 229
KG L+G G GKT L A+A++L
Sbjct: 51 GKKMKGLYLHGSFGVGKTYLLAAIANEL 78
Score = 37.7 bits (88), Expect = 0.006
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 521 ITPPKGCLLYGPPGTGKTLLARAVASQL 548
KG L+G G GKT L A+A++L
Sbjct: 51 GKKMKGLYLHGSFGVGKTYLLAAIANEL 78
>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 = 38.3 bits (90), Expect = 0.007
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANF 233
LL G PG KTL +A +D +F
Sbjct: 49 ILLEGVPGLAKTLSVNTLAKTMDLDF 74
Score = 38.3 bits (90), Expect = 0.007
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANF 552
LL G PG KTL +A +D +F
Sbjct: 49 ILLEGVPGLAKTLSVNTLAKTMDLDF 74
>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 = 37.9 bits (89), Expect = 0.011
Identities = 57/193 (29%), Positives = 85/193 (44%), Gaps = 52/193 (26%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDK---------YIGESA---RLIREMF 576
L GPPG GKT LA+++A L F+++ + D+ Y+G A R+I+ M
Sbjct: 113 LAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHRRTYVG--AMPGRIIQGM- 169
Query: 577 NYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL----NQ--MD-----GFD 625
A P + +DEID + + +SA ++E+L N D FD
Sbjct: 170 KKAGKLNP-VFLLDEIDKMSSDFRGDPSSA-------MLEVLDPEQNSSFSDHYIEETFD 221
Query: 626 SLGQVKMIMAT-NRPDTLDPALLRPGRLDR--KIEIPLPNEQARLEILKIHAGP--IAKH 680
L +V + +AT N T+ L DR I I E +LEI+K H P I +H
Sbjct: 222 -LSKV-LFIATANNLATIPGPL-----RDRMEIINIAGYTEIEKLEIVKDHLLPKQIKEH 274
Query: 681 G------EIGDAA 687
G ++ D A
Sbjct: 275 GLKKSNLQLRDQA 287
Score = 35.9 bits (84), Expect = 0.046
Identities = 13/27 (48%), Positives = 19/27 (70%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFLKV 236
L GPPG GKT LA+++A L F+++
Sbjct: 113 LAGPPGVGKTSLAKSIAKSLGRKFVRI 139
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 37.2 bits (86), Expect = 0.014
Identities = 34/183 (18%), Positives = 54/183 (29%), Gaps = 26/183 (14%)
Query: 201 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGN------ 254
G LL G GTGKT A + + + +FVT +E L
Sbjct: 26 GFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEYGEPG--VFVTLEERARDLRREMASFGW 83
Query: 255 -------QLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDE 307
+ K + V + +R ++ + + +D
Sbjct: 84 DFEKYEKEGKIAIVDGVSSVVGLPSEEKFVLEDRFNVDNFLRYIYRVVKAINAKRLVIDS 143
Query: 308 IDAIGGRRFSEGTSAD-REIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRPG 366
I +I RE+ L +L +M V I+ T PD L R G
Sbjct: 144 IPSI---ALRLEEERKIREVLLKLNTILLEMG-------VTTILTTEAPDPQHGKLSRYG 193
Query: 367 RLD 369
+
Sbjct: 194 IEE 196
Score = 32.2 bits (73), Expect = 0.44
Identities = 10/22 (45%), Positives = 10/22 (45%)
Query: 520 GITPPKGCLLYGPPGTGKTLLA 541
G LL G GTGKT A
Sbjct: 26 GFPEGTTVLLTGGTGTGKTTFA 47
>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 = 37.4 bits (87), Expect = 0.014
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 207 GCLLYGPPGTGKTLLARAVASQL 229
G L++G GTGK+ RA+A+ L
Sbjct: 47 GVLVFGDRGTGKSTAVRALAALL 69
Score = 37.4 bits (87), Expect = 0.014
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 526 GCLLYGPPGTGKTLLARAVASQL 548
G L++G GTGK+ RA+A+ L
Sbjct: 47 GVLVFGDRGTGKSTAVRALAALL 69
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 36.5 bits (85), Expect = 0.020
Identities = 24/148 (16%), Positives = 52/148 (35%), Gaps = 18/148 (12%)
Query: 201 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVT---SKED-------MAI 250
GI L G PGTGKT+ + ++ + ++VT S++
Sbjct: 19 GIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPC---IYVTTEESRDSIIRQAKQFNW 75
Query: 251 LMGNQLKRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDA 310
++++ ++V+ E + E + + +D + A
Sbjct: 76 DFEEYIEKKLIIIDALMKEKEDQWSLVNLTPEELVNKVIEAKQ-KLGYGKARLVIDSVSA 134
Query: 311 IGGRRFSEGTSADREIQRTLMELLNQMD 338
+ F + + R+I L +LN+ +
Sbjct: 135 L----FLDKPAMARKISYYLKRVLNKWN 158
Score = 35.4 bits (82), Expect = 0.042
Identities = 21/121 (17%), Positives = 43/121 (35%), Gaps = 20/121 (16%)
Query: 520 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIG--ESARLIREM-- 575
GI L G PGTGKT+ + ++ + + Y+ ES I
Sbjct: 19 GIPQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCI-------YVTTEESRDSIIRQAK 71
Query: 576 ---FNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDG------FDS 626
+++ + +I +D + ++S E+ ++E ++ DS
Sbjct: 72 QFNWDFEEYIEKKLIIIDALMKEKEDQWSLVNLTPEELVNKVIEAKQKLGYGKARLVIDS 131
Query: 627 L 627
+
Sbjct: 132 V 132
>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 = 35.8 bits (82), Expect = 0.020
Identities = 18/130 (13%), Positives = 44/130 (33%), Gaps = 11/130 (8%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKE------DMAILMGNQLKRRSTH 262
++ G PG GKT L + + +L + + + + G + K S+
Sbjct: 4 IITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITTEGKK-KIFSSK 62
Query: 263 HLEKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSA 322
V + + ++ + A+ + +I +DEI G+
Sbjct: 63 FFTSKKLVGSYGVNVQYFEELAIPILERAYREAKKDRRKVIIIDEI----GKMELFSKKF 118
Query: 323 DREIQRTLME 332
+++ + +
Sbjct: 119 RDLVRQIMHD 128
Score = 30.8 bits (69), Expect = 0.94
Identities = 15/129 (11%), Positives = 38/129 (29%), Gaps = 44/129 (34%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGE-------------------- 567
++ G PG GKT L + + +L + + + D +
Sbjct: 4 IITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGFRIITTEGKKKIFSSKF 63
Query: 568 --------------------SARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSAD 607
+ ++ + A+ + +I +DEI G+
Sbjct: 64 FTSKKLVGSYGVNVQYFEELAIPILERAYREAKKDRRKVIIIDEI----GKMELFSKKFR 119
Query: 608 REIQRTLME 616
+++ + +
Sbjct: 120 DLVRQIMHD 128
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 35.2 bits (82), Expect = 0.023
Identities = 16/51 (31%), Positives = 22/51 (43%), Gaps = 11/51 (21%)
Query: 175 GLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAV 225
G SE I + R + Q++ T LYG PGTG+ AR +
Sbjct: 5 GRSEWINQYRRRL----------QQLSETDIA-VWLYGAPGTGRMTGARYL 44
Score = 30.9 bits (71), Expect = 0.57
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 528 LLYGPPGTGKTLLARAV 544
LYG PGTG+ AR +
Sbjct: 28 WLYGAPGTGRMTGARYL 44
>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 = 35.8 bits (82), Expect = 0.024
Identities = 29/186 (15%), Positives = 54/186 (29%), Gaps = 36/186 (19%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSS----LFVTSKEDMAILMGNQLKRRSTHHL 264
L+ G PG+GKTL + V+ + K + T+ + + I
Sbjct: 9 LITGTPGSGKTL--KMVSMMANDEMFKPDENGIRRKVFTNIKGLKI-------------- 52
Query: 265 EKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADR 324
TY + + + + + + I+ +DE + +
Sbjct: 53 PHTYIETDAKKLPKSTDEQLSAHDMYEWIKKPENIGSIVIVDEAQDV------WPARSAG 106
Query: 325 EIQRTLMELLNQM--DGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQAR 382
++ LN G D + + T P LD L + + I R
Sbjct: 107 SKIPENVQWLNTHRHQGID------IFVLTQGPKLLDQNLRT--LVRKHYHIASNKMGMR 158
Query: 383 LAHTWP 388
W
Sbjct: 159 TLLEWK 164
Score = 32.7 bits (74), Expect = 0.26
Identities = 22/146 (15%), Positives = 44/146 (30%), Gaps = 37/146 (25%)
Query: 528 LLYGPPGTGKTLLA------------------RAVAS-----QLDANFLKVVSSAIVDKY 564
L+ G PG+GKTL R V + ++ +++ + +
Sbjct: 9 LITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKST 68
Query: 565 IGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQM--D 622
+ + + + I+ +DE + + ++ LN
Sbjct: 69 DEQLSAHDMYEWIKKPENIGSIVIVDEAQDV------WPARSAGSKIPENVQWLNTHRHQ 122
Query: 623 GFDSLGQVKMIMATNRPDTLDPALLR 648
G D + + T P LD L
Sbjct: 123 GID------IFVLTQGPKLLDQNLRT 142
>2fna_A Conserved hypothetical protein; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus}
SCOP: a.4.5.11 c.37.1.20
Length = 357
Score = 36.6 bits (84), Expect = 0.028
Identities = 28/195 (14%), Positives = 62/195 (31%), Gaps = 34/195 (17%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHLEK-- 266
L+ G TGK+ + + ++L+ ++ + F +L++ +++
Sbjct: 34 LVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKEINKLVKRLP 93
Query: 267 ---------TYFPFYSSAIVDKYIGESARLIREMFNY--ARNHQPCIIFMDEIDAIGGRR 315
+ I + + + + II +DE +
Sbjct: 94 SLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQEL---- 149
Query: 316 FSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALLRP-------GRL 368
+ L+ L +D+L ++K IM+ + L L GR
Sbjct: 150 -------VKLRGVNLLPALA--YAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRA 200
Query: 369 DRKIEI-PLPNEQAR 382
+E+ P E+A
Sbjct: 201 FSTVELKPFSREEAI 215
Score = 32.0 bits (72), Expect = 0.70
Identities = 12/109 (11%), Positives = 38/109 (34%), Gaps = 1/109 (0%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQPCI- 586
L+ G TGK+ + + ++L+ ++ + ++ + E+ +
Sbjct: 34 LVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKEINKLVKRLP 93
Query: 587 IFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMA 635
+ + I G ++ + N ++ F+ + +I+
Sbjct: 94 SLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIV 142
>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 = 36.4 bits (84), Expect = 0.030
Identities = 39/225 (17%), Positives = 74/225 (32%), Gaps = 59/225 (26%)
Query: 147 RYLPREVDPLVYNMSHEDPGDITYSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPK 206
+Y P+ ++ L +N E L+ + + P P L
Sbjct: 7 KYRPKSLNALSHN-----------------EELTNFLKSLSDQPRDLPHL---------- 39
Query: 207 GCLLYGPPGTGKTLLARAVASQL---DANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHH 263
LLYGP GTGK A+ + LK+ FVT+ L S +H
Sbjct: 40 --LLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELN----VVSSPYH 93
Query: 264 LEKT--YFPFYSSAIVDKYIGESARLIREMFNYARNHQPC----IIFMDEIDAIGGRRFS 317
LE T ++ + + E A++ ++ + ++E +++
Sbjct: 94 LEITPSDMGNNDRIVIQELLKEVAQM-EQVDFQDSKDGLAHRYKCVIINEANSL------ 146
Query: 318 EGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPAL 362
T + R ME + +++IM + + +
Sbjct: 147 --TKDAQAALRRTMEKYS--------KNIRLIMVCDSMSPIIAPI 181
Score = 31.8 bits (72), Expect = 0.80
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 528 LLYGPPGTGKTLLARAVASQL 548
LLYGP GTGK A+ +
Sbjct: 40 LLYGPNGTGKKTRCMALLESI 60
>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 = 36.2 bits (83), Expect = 0.036
Identities = 13/35 (37%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 203 TPPKGCLL-YGPPGTGKTLLARAVASQLDANFLKV 236
P K L GP +GKT LA A+ L V
Sbjct: 166 IPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNV 200
Score = 36.2 bits (83), Expect = 0.036
Identities = 13/35 (37%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 522 TPPKGCLL-YGPPGTGKTLLARAVASQLDANFLKV 555
P K L GP +GKT LA A+ L V
Sbjct: 166 IPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNV 200
>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 = 35.1 bits (80), Expect = 0.049
Identities = 12/51 (23%), Positives = 24/51 (47%), Gaps = 8/51 (15%)
Query: 528 LLYGPPGTGKTLLARAVASQLDA--------NFLKVVSSAIVDKYIGESAR 570
LL G PG+GK+ +A A+A+ + + +D ++ +S +
Sbjct: 13 LLSGHPGSGKSTIAEALANLPGVPKVHFHSDDLWGYIKHGRIDPWLPQSHQ 63
Score = 34.7 bits (79), Expect = 0.056
Identities = 11/33 (33%), Positives = 17/33 (51%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLF 241
LL G PG+GK+ +A A+A+ + S
Sbjct: 13 LLSGHPGSGKSTIAEALANLPGVPKVHFHSDDL 45
>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 = 35.6 bits (82), Expect = 0.050
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 203 TPPKGCL-LYGPPGTGKTLLARAVASQLDANFLKVVSS 239
P K CL GPP TGK++L ++ L + L +
Sbjct: 123 IPKKNCLAFIGPPNTGKSMLCNSLIHFLGGSVLSFANH 160
Score = 35.6 bits (82), Expect = 0.050
Identities = 13/38 (34%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 522 TPPKGCL-LYGPPGTGKTLLARAVASQLDANFLKVVSS 558
P K CL GPP TGK++L ++ L + L +
Sbjct: 123 IPKKNCLAFIGPPNTGKSMLCNSLIHFLGGSVLSFANH 160
>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 = 34.7 bits (79), Expect = 0.054
Identities = 8/35 (22%), Positives = 17/35 (48%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVD 562
+L G GK+ + R + S L +L ++++
Sbjct: 7 ILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIE 41
Score = 34.4 bits (78), Expect = 0.070
Identities = 8/33 (24%), Positives = 13/33 (39%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSLF 241
+L G GK+ + R + S L +L
Sbjct: 7 ILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSL 39
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 34.2 bits (79), Expect = 0.056
Identities = 12/71 (16%), Positives = 27/71 (38%), Gaps = 12/71 (16%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQPCIIF 588
++G G GK+ L +A +Q YI ++ + + A +
Sbjct: 41 VWGEEGAGKSHLLQAWVAQALEAGKNAA-------YIDAASMPLTDAAFEAE-----YLA 88
Query: 589 MDEIDAIGGRR 599
+D+++ +G
Sbjct: 89 VDQVEKLGNEE 99
Score = 31.1 bits (71), Expect = 0.64
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFLKVV 237
++G G GK+ L +A +Q
Sbjct: 41 VWGEEGAGKSHLLQAWVAQALEAGKNAA 68
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 36.0 bits (83), Expect = 0.061
Identities = 22/104 (21%), Positives = 40/104 (38%), Gaps = 15/104 (14%)
Query: 210 LYGPPGTGKTLLARAVA---SQLDANFLKVV--SSLFVTSKEDMAILMGNQLKRRSTHHL 264
+YG G GK++LA S L+ F V S+ K + + + N L R
Sbjct: 152 IYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQN-LCMRLDQEE 210
Query: 265 EKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEI 308
+ + I E+ +R + R H ++ +D++
Sbjct: 211 SFSQRLPLN-------IEEAKDRLRVLM--LRKHPRSLLILDDV 245
Score = 29.8 bits (67), Expect = 3.8
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 529 LYGPPGTGKTLLARAVASQLD 549
+YG G GK++LA
Sbjct: 152 IYGMAGCGKSVLAAEAVRDHS 172
>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 = 35.4 bits (82), Expect = 0.061
Identities = 23/75 (30%), Positives = 37/75 (49%), Gaps = 13/75 (17%)
Query: 528 LLYGP-PGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIRE-MFNYARNHQPC 585
+L+ P PGTGKT +A+A+ ++A+ + V S D I +R + N+A
Sbjct: 51 ILHSPSPGTGKTTVAKALCHDVNADMMFVNGS---DCKID----FVRGPLTNFASAASFD 103
Query: 586 ----IIFMDEIDAIG 596
+I +DE D G
Sbjct: 104 GRQKVIVIDEFDRSG 118
Score = 31.5 bits (72), Expect = 0.81
Identities = 11/27 (40%), Positives = 20/27 (74%), Gaps = 1/27 (3%)
Query: 209 LLYGP-PGTGKTLLARAVASQLDANFL 234
+L+ P PGTGKT +A+A+ ++A+ +
Sbjct: 51 ILHSPSPGTGKTTVAKALCHDVNADMM 77
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 34.7 bits (80), Expect = 0.082
Identities = 24/157 (15%), Positives = 44/157 (28%), Gaps = 31/157 (19%)
Query: 201 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRS 260
GI LL G PGTGKT+ ++ ++V +E Q+++
Sbjct: 19 GIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPG---IYVALEEH-----PVQVRQNM 70
Query: 261 THH-------LEKTYFPFYSSAIVDKYIGESA------------RLIREMFNYARNHQPC 301
EK F + + I + R+
Sbjct: 71 AQFGWDVKPYEEKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREFIEVLRQAIRDINAK 130
Query: 302 IIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMD 338
+ +D + + + + R I L +L
Sbjct: 131 RVVVDSVTTL----YINKPAMARSIILQLKRVLAGTG 163
Score = 33.1 bits (76), Expect = 0.26
Identities = 14/57 (24%), Positives = 21/57 (36%), Gaps = 9/57 (15%)
Query: 520 GITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIG--ESARLIRE 574
GI LL G PGTGKT+ ++ + Y+ E +R+
Sbjct: 19 GIPERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGI-------YVALEEHPVQVRQ 68
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 33.9 bits (77), Expect = 0.088
Identities = 28/140 (20%), Positives = 47/140 (33%), Gaps = 24/140 (17%)
Query: 206 KGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKE---------DMAILMGNQL 256
+ L GPPG GKT L + L ++ + V F T + D+ L G
Sbjct: 2 RHVFLTGPPGVGKTTLIHKASEVLKSSGVPVDG--FYTEEVRQGGRRIGFDVVTLSG--- 56
Query: 257 KRRSTHHLEKTYFPFYSSAIVDKYIGESARLIREMFNYARN------HQPCIIFMDEIDA 310
R + P V +Y+ + + RN + +DEI
Sbjct: 57 TRGPLSRVGLEPPPGKRECRVGQYVVDLTSFEQLALPVLRNADCSSGPGQRVCVIDEI-- 114
Query: 311 IGGRRFSEGTSADREIQRTL 330
G+ + +++TL
Sbjct: 115 --GKMELFSQLFIQAVRQTL 132
Score = 30.1 bits (67), Expect = 2.1
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 525 KGCLLYGPPGTGKTLLARAVASQLDANFLKV 555
+ L GPPG GKT L + L ++ + V
Sbjct: 2 RHVFLTGPPGVGKTTLIHKASEVLKSSGVPV 32
>2xs1_A Programmed cell death 6-interacting protein; protein
transport-viral protein complex, cell cycle; 2.30A {Homo
sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A
2ojq_A
Length = 704
Score = 35.3 bits (80), Expect = 0.090
Identities = 17/93 (18%), Positives = 33/93 (35%), Gaps = 8/93 (8%)
Query: 7 DEVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLH 66
E+ K + +EV L+ + L E+ K+ + ENDLK++ L
Sbjct: 534 PELNAAIPSANPAKTMQGSEVVNVLKSLLSNLDEVKKEREGLENDLKSVNFDMTSKFLTA 593
Query: 67 CVREQ--------LKELTKQYDKSENDLKALQS 91
++ + EL + Y ++
Sbjct: 594 LAQDGVINEEALSVTELDRVYGGLTTKVQESLK 626
>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 = 34.4 bits (79), Expect = 0.11
Identities = 31/140 (22%), Positives = 49/140 (35%), Gaps = 42/140 (30%)
Query: 528 LLYGPPGTGKTLLARAVASQL----------------DANFLKVVSSAIVDKYIGESARL 571
L YGPPGTGKT A+ +L D + +V + ARL
Sbjct: 62 LFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREK-----VKNFARL 116
Query: 572 -IREMFNYARNHQPC----IIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDS 626
+ + + + PC II +DE D++ T+ + R ME +
Sbjct: 117 TVSKPSKHDLENYPCPPYKIIILDEADSM--------TADAQSALRRTMETYS------- 161
Query: 627 LGQVKMIMATNRPDTLDPAL 646
G + + N + L
Sbjct: 162 -GVTRFCLICNYVTRIIDPL 180
Score = 32.1 bits (73), Expect = 0.60
Identities = 12/21 (57%), Positives = 14/21 (66%)
Query: 209 LLYGPPGTGKTLLARAVASQL 229
L YGPPGTGKT A+ +L
Sbjct: 62 LFYGPPGTGKTSTILALTKEL 82
>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 = 33.6 bits (76), Expect = 0.12
Identities = 22/130 (16%), Positives = 40/130 (30%), Gaps = 14/130 (10%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQPCII 587
L+ G PGTGKT +A +A++LD V + + + + II
Sbjct: 14 LITGTPGTGKTSMAEMIAAELDGFQHLEVGKLVKENHFYTEYDTELDTH---------II 64
Query: 588 FMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTLDPALL 647
+ D + S + L F +++ + L L
Sbjct: 65 EEKDEDRLLDFMEPIMVSRGNHVVDYHSSELFPERWFH-----MVVVLHTSTEVLFERLT 119
Query: 648 RPGRLDRKIE 657
+ + K
Sbjct: 120 KRQYSEAKRA 129
Score = 31.2 bits (70), Expect = 0.81
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSSL 240
L+ G PGTGKT +A +A++LD V L
Sbjct: 14 LITGTPGTGKTSMAEMIAAELDGFQHLEVGKL 45
>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 = 34.8 bits (80), Expect = 0.12
Identities = 62/449 (13%), Positives = 145/449 (32%), Gaps = 105/449 (23%)
Query: 206 KGCLLYGPPGTGKTLLARAVASQLDANFLKVVS-SLFVTSKEDMAILMGNQLKRRSTHHL 264
+G +L GPPG+GKT++ + ++ S T++ ++ L + ++
Sbjct: 1268 RGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKG- 1326
Query: 265 EKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADR 324
T P + + ++F DEI+ ++ G+
Sbjct: 1327 -LTLLP------------------------KSDIKNLVLFCDEINLPKLDKY--GSQNVV 1359
Query: 325 EIQRTLMELLNQMDGFD----SLGQVKMIMATNRPDT-----LDPALLRPGRLDRKIEIP 375
R LME + ++ ++ ++ A N P + R + + +
Sbjct: 1360 LFLRQLMEKQGFWKTPENKWVTIERIHIVGACNPPTDPGRIPMSERFTRHAAI---LYLG 1416
Query: 376 LPNE-----------QARLAHTWPISIHAGPIAKHGEIDYEAVVKL--SDS-----FNGA 417
P+ +A + P A+ Y + F+
Sbjct: 1417 YPSGKSLSQIYEIYYKAIFKLVPEFRSYTEPFARASVHLYNECKARYSTGLQSHYLFSPR 1476
Query: 418 DLRNVCTEAGLFAIRSERE---------------------YVTQED---FMKAVRKVSDN 453
+L + AI + V ++ F + + + D
Sbjct: 1477 ELTRLVRGV-YTAINTGPRQTLRSLIRLWAYEAWRIFADRLVGVKEKNSFEQLLYETVDK 1535
Query: 454 K-KLDHCNSYRTEAGLFA--IRSEREYVTQEDFMKAVRKVSDNKKLESKLDYKPVIELPL 510
+ + + LF+ + + + V + D + + ++ ++ D + + + +
Sbjct: 1536 YLPNQDLGNISSTSLLFSGLLSLDFKEVNKTDLVNFI-----EERFKTFCDEELEVPMVI 1590
Query: 511 LNPEL-----FQRVGITPPKG-CLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKY 564
+ R + +G +L G TGKT+L R VA LK+V I
Sbjct: 1591 HESMVDHILRIDRA-LKQVQGHMMLIGASRTGKTILTRFVAWLNG---LKIVQPKIHRHS 1646
Query: 565 -IGESARLIREMFNYA--RNHQPCIIFMD 590
+ + ++++ + + + C+I +
Sbjct: 1647 NLSDFDMILKKAISDCSLKESRTCLIIDE 1675
Score = 32.9 bits (75), Expect = 0.46
Identities = 25/164 (15%), Positives = 59/164 (35%), Gaps = 24/164 (14%)
Query: 525 KGCLLYGPPGTGKTLLARAVASQLDANFLKVVS-SA---------IVDKYIGESARLIRE 574
+G +L GPPG+GKT++ + ++ S + ++
Sbjct: 1268 RGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGL 1327
Query: 575 MFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFD----SLGQV 630
+ + ++F DEI+ ++ G+ R LME + ++ ++
Sbjct: 1328 TLLPKSDIKNLVLFCDEINLPKLDKY--GSQNVVLFLRQLMEKQGFWKTPENKWVTIERI 1385
Query: 631 KMIMATNRPDT-----LDPALLRPGRLDRKIEIPLPNEQARLEI 669
++ A N P + R + + + P+ ++ +I
Sbjct: 1386 HIVGACNPPTDPGRIPMSERFTRHAAI---LYLGYPSGKSLSQI 1426
Score = 29.0 bits (65), Expect = 7.0
Identities = 16/84 (19%), Positives = 29/84 (34%), Gaps = 10/84 (11%)
Query: 199 RVGITPPKG-CLLYGPPGTGKTLLARAVASQLDANF--LKVVSSLFVTS-KEDMAILMGN 254
R + +G +L G TGKT+L R VA K+ ++ + +
Sbjct: 1603 RA-LKQVQGHMMLIGASRTGKTILTRFVAWLNGLKIVQPKIHRHSNLSDFDMILKKAI-- 1659
Query: 255 QLKRRSTHHLEKTYFPFYSSAIVD 278
+ +T S I++
Sbjct: 1660 ---SDCSLKESRTCLIIDESNILE 1680
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 34.3 bits (78), Expect = 0.12
Identities = 23/193 (11%), Positives = 57/193 (29%), Gaps = 16/193 (8%)
Query: 181 RELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSL 240
+ +V++L L R+ +L G PG+GK+ +A + ++ + +S
Sbjct: 6 KLADDVLQL------LDNRIEDNYRVCVILVGSPGSGKSTIAEELCQIINEKYHTFLSEH 59
Query: 241 FVTSKEDMAILMGNQLKRRSTHHLEKTYFPFYSSAIVD--KYIGESARLIREMFNYARNH 298
+ + + +L + + + + + G + ++ +
Sbjct: 60 PNVIE--------VNDRLKPMVNLVDSLKTLQPNKVAEMIENQGLFKDHVEDVNFQPVKY 111
Query: 299 QPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNRPDTL 358
+E A+ R + + + D + V M L
Sbjct: 112 SALTSNNEECTAVVARGGTANAIRIAAVDNPVNVNKLAQDSINIAQIVPMDGFHLSRRCL 171
Query: 359 DPALLRPGRLDRK 371
D R+
Sbjct: 172 DLFKDPQTAHKRR 184
Score = 33.1 bits (75), Expect = 0.34
Identities = 22/184 (11%), Positives = 46/184 (25%), Gaps = 29/184 (15%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVD------------------------- 562
+L G PG+GK+ +A + ++ + +S
Sbjct: 28 ILVGSPGSGKSTIAEELCQIINEKYHTFLSEHPNVIEVNDRLKPMVNLVDSLKTLQPNKV 87
Query: 563 ----KYIGESARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELL 618
+ G + ++ + +E A+ R + + +
Sbjct: 88 AEMIENQGLFKDHVEDVNFQPVKYSALTSNNEECTAVVARGGTANAIRIAAVDNPVNVNK 147
Query: 619 NQMDGFDSLGQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIHAGPIA 678
D + V M LD R+ + L++ KI A
Sbjct: 148 LAQDSINIAQIVPMDGFHLSRRCLDLFKDPQTAHKRRGSPSTFDSNNFLQLCKILAKTSL 207
Query: 679 KHGE 682
Sbjct: 208 CKVS 211
>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 = 33.5 bits (76), Expect = 0.12
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 4/57 (7%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSSA----IVDKYIGESARLIREMFNYAR 580
LL G PG GKT L + +AS+ ++ V A + D Y E I +
Sbjct: 15 LLTGTPGVGKTTLGKELASKSGLKYINVGDLAREEQLYDGYDEEYDCPILDEDRVVD 71
Score = 33.5 bits (76), Expect = 0.13
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKV 236
LL G PG GKT L + +AS+ ++ V
Sbjct: 15 LLTGTPGVGKTTLGKELASKSGLKYINV 42
>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 = 33.9 bits (77), Expect = 0.13
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 4/50 (8%)
Query: 503 KPVIELPLLN--PELFQRV--GITPPKGCLLYGPPGTGKTLLARAVASQL 548
KP+ L P V + L P G GK++LA +A+Q+
Sbjct: 5 KPINILEAFAAAPPPLDYVLPNMVAGTVGALVSPGGAGKSMLALQLAAQI 54
Score = 33.2 bits (75), Expect = 0.25
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 201 GITPPKGCLLYGPPGTGKTLLARAVASQL 229
+ L P G GK++LA +A+Q+
Sbjct: 26 NMVAGTVGALVSPGGAGKSMLALQLAAQI 54
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure
initiati YORK structural genomics research consortium,
nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 33.5 bits (76), Expect = 0.13
Identities = 9/46 (19%), Positives = 20/46 (43%)
Query: 204 PPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMA 249
P ++ G G+GK+ + A+A F++ + + M+
Sbjct: 17 FPGSIVVMGVSGSGKSSVGEAIAEACGYPFIEGDALHPPENIRKMS 62
Score = 33.5 bits (76), Expect = 0.14
Identities = 8/31 (25%), Positives = 15/31 (48%)
Query: 523 PPKGCLLYGPPGTGKTLLARAVASQLDANFL 553
P ++ G G+GK+ + A+A F+
Sbjct: 17 FPGSIVVMGVSGSGKSSVGEAIAEACGYPFI 47
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 33.2 bits (75), Expect = 0.16
Identities = 15/71 (21%), Positives = 32/71 (45%), Gaps = 9/71 (12%)
Query: 19 KKLTEHAEVEGRLREMRE-QLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTK 77
+LT+ E +R+ RE Q K L + S+ + + + DL E + ++
Sbjct: 78 DRLTQEPES---IRKWREEQRKRLQELDAASKVMEQEWREKAKKDL-----EEWNQRQSE 129
Query: 78 QYDKSENDLKA 88
Q +K++ + +
Sbjct: 130 QVEKNKINNRI 140
Score = 30.9 bits (69), Expect = 0.87
Identities = 14/69 (20%), Positives = 25/69 (36%), Gaps = 13/69 (18%)
Query: 15 QDYRKKLTEHAEVEGRLR-EMREQ-LKELTKQYDKSENDL-KALQSVGQHDLLLHCVREQ 71
++ RK+L E + E RE+ K+L + + + K + R
Sbjct: 92 EEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKIN----------NRIA 141
Query: 72 LKELTKQYD 80
K +Q D
Sbjct: 142 DKAFYQQPD 150
>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 = 0.17
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 203 TPPKGCLL-YGPPGTGKTLLARAVASQLDANFLKVVSS 239
TP K CL+ GP TGK+ + + + V+S
Sbjct: 55 TPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNS 92
Score = 33.2 bits (76), Expect = 0.17
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 522 TPPKGCLL-YGPPGTGKTLLARAVASQLDANFLKVVSS 558
TP K CL+ GP TGK+ + + + V+S
Sbjct: 55 TPKKNCLVFCGPANTGKSYFGMSFIHFIQGAVISFVNS 92
>3o0z_A RHO-associated protein kinase 1; coiled-coil, transferase; HET:
MSE; 2.33A {Homo sapiens}
Length = 168
Score = 32.8 bits (74), Expect = 0.19
Identities = 17/85 (20%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 12 KTLQDYRKKLTEH----AEVEGRLREMREQLKELTKQYDKSENDLKALQS-VGQHDLLLH 66
T RK TE +++E RE++E+ + L +++ D LQ+ +
Sbjct: 27 DTAVRLRKSHTEMSKSISQLESLNRELQERNRILENSKSQTDKDYYQLQAILEAERRDRG 86
Query: 67 CVREQLKELTKQYDKSENDLKALQS 91
E + +L + + ++K L+
Sbjct: 87 HDSEMIGDLQARITSLQEEVKHLKH 111
>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 = 32.8 bits (75), Expect = 0.20
Identities = 5/23 (21%), Positives = 11/23 (47%)
Query: 212 GPPGTGKTLLARAVASQLDANFL 234
GP K+ +A ++ +L +
Sbjct: 8 GPDCCFKSTVAAKLSKELKYPII 30
Score = 32.8 bits (75), Expect = 0.20
Identities = 5/23 (21%), Positives = 11/23 (47%)
Query: 531 GPPGTGKTLLARAVASQLDANFL 553
GP K+ +A ++ +L +
Sbjct: 8 GPDCCFKSTVAAKLSKELKYPII 30
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin
subfragment 2, heavy meromyosin, essential light chain,
motor protein; HET: MLY; 20.00A {Gallus gallus} SCOP:
i.15.1.1 PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 33.7 bits (77), Expect = 0.25
Identities = 15/84 (17%), Positives = 37/84 (44%), Gaps = 13/84 (15%)
Query: 8 EVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHC 67
E+ + + + + E+E L EM +++E ++ + + + K +Q
Sbjct: 906 ELYAEAEEMRVRLAAKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQ----------- 954
Query: 68 VREQLKELTKQYDKSENDLKALQS 91
+Q+ +L +Q ++ E + LQ
Sbjct: 955 --QQMLDLEEQLEEEEAARQKLQL 976
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function
initiative, EFI, STRU genomics, transferase; 1.60A
{Janibacter SP}
Length = 200
Score = 32.7 bits (74), Expect = 0.25
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 204 PPKGCLLYGPPGTGKTLLARAVASQLDANFL 234
P + ++ G G+GKT +A VA + F
Sbjct: 28 PTRHVVVMGVSGSGKTTIAHGVADETGLEFA 58
Score = 32.7 bits (74), Expect = 0.25
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 523 PPKGCLLYGPPGTGKTLLARAVASQLDANFL 553
P + ++ G G+GKT +A VA + F
Sbjct: 28 PTRHVVVMGVSGSGKTTIAHGVADETGLEFA 58
>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 = 33.8 bits (78), Expect = 0.26
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 4/42 (9%)
Query: 199 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQLDANFLKV 236
R G+ G L+ GP G GKT + ++ L L+
Sbjct: 478 RAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRF 519
Score = 33.8 bits (78), Expect = 0.26
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 4/42 (9%)
Query: 518 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQLDANFLKV 555
R G+ G L+ GP G GKT + ++ L L+
Sbjct: 478 RAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIELLRF 519
Score = 28.8 bits (65), Expect = 8.0
Identities = 36/173 (20%), Positives = 66/173 (38%), Gaps = 53/173 (30%)
Query: 528 LLYGPPGTGKTLLARAVASQLDAN----FLK---VVS---SAIV--DKYIGESARLIREM 575
LL G G GKT +A +A ++ + + S +++ KY G+ + + +
Sbjct: 211 LLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKAL 270
Query: 576 FNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSL------GQ 629
I+F+DEI I G + G +D + + G+
Sbjct: 271 LKQLEQDTNSILFIDEIHTIIGAGAASGGQ---------------VDAANLIKPLLSSGK 315
Query: 630 VKMIMATNRPDTL---------DPALLRPGRLDR--KIEIPLPNEQARLEILK 671
+++I +T T D AL R R KI+I P+ + ++I+
Sbjct: 316 IRVIGST----TYQEFSNIFEKDRALAR-----RFQKIDITEPSIEETVQIIN 359
>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 = 33.5 bits (76), Expect = 0.26
Identities = 8/43 (18%), Positives = 15/43 (34%)
Query: 195 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 237
+ + + GP GTG T L + + L + +
Sbjct: 35 NIVMKAIKEKKHHVTINGPAGTGATTLTKFIIEALISTGETGI 77
Score = 33.5 bits (76), Expect = 0.26
Identities = 8/43 (18%), Positives = 15/43 (34%)
Query: 514 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVV 556
+ + + GP GTG T L + + L + +
Sbjct: 35 NIVMKAIKEKKHHVTINGPAGTGATTLTKFIIEALISTGETGI 77
>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 = 32.2 bits (72), Expect = 0.26
Identities = 5/12 (41%), Positives = 7/12 (58%), Gaps = 1/12 (8%)
Query: 494 KKLESKLD-YKP 504
KKL++ L Y
Sbjct: 23 KKLQASLKLYAD 34
Score = 28.8 bits (63), Expect = 3.8
Identities = 7/35 (20%), Positives = 16/35 (45%), Gaps = 9/35 (25%)
Query: 69 REQLKELTKQYDKSENDLK--ALQSVGQVSLSTSV 101
++ LK+L + LK A S +++ ++
Sbjct: 19 KQALKKL-------QASLKLYADDSAPALAIKATM 46
>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 = 33.0 bits (75), Expect = 0.29
Identities = 19/113 (16%), Positives = 41/113 (36%), Gaps = 16/113 (14%)
Query: 135 RVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITYSAIGG-LSEQIRELREVIELPLLN 193
+ ALD + + Y + + DI+ + I L + + +
Sbjct: 41 KAALDN----AGKIMSLTKTAPDYLVGQQPVEDISSNRIYKILELNGYDPQYA--ASVFL 94
Query: 194 PELFQRVGITPPKGCL-LYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSK 245
++ + + L+GP TGKT +A A+ A+ + + T++
Sbjct: 95 GWATKKF---GKRNTIWLFGPATTGKTNIAEAI-----AHTVPFYGCVNWTNE 139
Score = 32.6 bits (74), Expect = 0.36
Identities = 15/74 (20%), Positives = 28/74 (37%), Gaps = 19/74 (25%)
Query: 522 TPPKGCL-LYGPPGTGKTLLARAVASQLDANFLKVVSSA-----------IVDKYIG--E 567
+ + L+GP TGKT +A A+ A+ + VDK + E
Sbjct: 101 FGKRNTIWLFGPATTGKTNIAEAI-----AHTVPFYGCVNWTNENFPFNDCVDKMVIWWE 155
Query: 568 SARLIREMFNYARN 581
++ ++ A+
Sbjct: 156 EGKMTAKVVESAKA 169
>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 = 32.3 bits (73), Expect = 0.31
Identities = 24/162 (14%), Positives = 51/162 (31%), Gaps = 27/162 (16%)
Query: 522 TPPKGCLLYGPPGTGKTLLARAVASQLD------------ANFLKVVSSAIVDKYIGES- 568
+L G G+GK+ +A VA QL N K+ S ++ +
Sbjct: 6 HDHHIYVLMGVSGSGKSAVASEVAHQLHAAFLDGDFLHPRRNIEKMASGEPLNDDDRKPW 65
Query: 569 -ARLIREMFNYARNHQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSL 627
L F R ++ + I ++ R++ R L+ +
Sbjct: 66 LQALNDAAFAMQRTNKVSL-----IVCSALKK------HYRDLLREGNPNLSFIYLKGDF 114
Query: 628 GQVKMIMATNRPDTLDPALLRPGRLDRKIEIPLPNEQARLEI 669
++ + R + + + ++ P +E L +
Sbjct: 115 DVIESRLK-ARKGHFFKTQMLVTQFE-TLQEPGADETDVLVV 154
Score = 31.9 bits (72), Expect = 0.44
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 203 TPPKGCLLYGPPGTGKTLLARAVASQLDANFL 234
+L G G+GK+ +A VA QL A FL
Sbjct: 6 HDHHIYVLMGVSGSGKSAVASEVAHQLHAAFL 37
>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 = 33.2 bits (76), Expect = 0.33
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 209 LLYGPPGTGKTLLARAVASQL 229
L+ PG G L A++ L
Sbjct: 28 LIQALPGMGDDALIYALSRYL 48
Score = 33.2 bits (76), Expect = 0.33
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 528 LLYGPPGTGKTLLARAVASQL 548
L+ PG G L A++ L
Sbjct: 28 LIQALPGMGDDALIYALSRYL 48
>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 = 32.8 bits (75), Expect = 0.35
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 209 LLYGPPGTGKTLLARAVASQL 229
L YGPPGTGKT A+A ++
Sbjct: 50 LFYGPPGTGKTSTIVALAREI 70
Score = 32.8 bits (75), Expect = 0.35
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 528 LLYGPPGTGKTLLARAVASQL 548
L YGPPGTGKT A+A ++
Sbjct: 50 LFYGPPGTGKTSTIVALAREI 70
>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex,
blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A
{Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB:
1n73_C*
Length = 323
Score = 32.8 bits (75), Expect = 0.39
Identities = 13/99 (13%), Positives = 37/99 (37%), Gaps = 14/99 (14%)
Query: 35 REQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSENDLKALQSVGQ 94
++ ++++ ++ E + + Q++EL++ + ++ + LQ
Sbjct: 4 QKTVQKILEEVRILEQIGVSHDA-------------QIQELSEMWRVNQQFVTRLQQQ-L 49
Query: 95 VSLSTSVSKCWTVIVKATNGPRYVVGCRRQLDKAKLKSG 133
V + + S+ P C++ +D SG
Sbjct: 50 VDIRQTCSRPCQDTTANKISPITGKDCQQVVDNGGKDSG 88
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL
helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 32.6 bits (73), Expect = 0.40
Identities = 16/100 (16%), Positives = 29/100 (29%), Gaps = 17/100 (17%)
Query: 205 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTHHL 264
P LL G G GKT + R + N + + F RS H
Sbjct: 32 PIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSF-----------------RSQHPH 74
Query: 265 EKTYFPFYSSAIVDKYIGESARLIREMFNYARNHQPCIIF 304
Y V+ + +++ + + ++
Sbjct: 75 YLELQQEYGKDSVEYTKDFAGKMVESLVTKLSSLGYNLLI 114
Score = 32.6 bits (73), Expect = 0.42
Identities = 26/155 (16%), Positives = 48/155 (30%), Gaps = 15/155 (9%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIV---DKYIGESARLIREMFNYAR 580
P LL G G GKT + R + N + + + Y+ ++ Y +
Sbjct: 32 PIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSFRSQHPHYLELQQEYGKDSVEYTK 91
Query: 581 NHQPCIIFMDEIDAIGGRR--FSEGTSADREIQRTLMELLNQMDGFDSLGQVKMIMATNR 638
+ ++ EGT ++ + +LL +V++ +
Sbjct: 92 DFAGKMVESLVTKLSSLGYNLLIEGTLRTVDVPKKTAQLLKNKG-----YEVQLALI--- 143
Query: 639 PDTLDPALLRPGRLDRKIEIPLPNEQARLEILKIH 673
P L L R E+ + N K H
Sbjct: 144 --ATKPELSYLSTLIRYEELYIINPNQARATPKEH 176
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A
{Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 31.8 bits (73), Expect = 0.40
Identities = 17/50 (34%), Positives = 23/50 (46%), Gaps = 7/50 (14%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARL-IREMFN 577
G G+GK+ LARA+A LD FL D I + + E+F
Sbjct: 9 FIGFMGSGKSTLARALAKDLDLVFLD------SDFLIEQKFNQKVSEIFE 52
Score = 30.2 bits (69), Expect = 1.6
Identities = 13/25 (52%), Positives = 16/25 (64%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
G G+GK+ LARA+A LD FL
Sbjct: 9 FIGFMGSGKSTLARALAKDLDLVFL 33
>3co5_A Putative two-component system transcriptional RES regulator;
structural genomics, APC89341.1; 2.40A {Neisseria
gonorrhoeae}
Length = 143
Score = 31.4 bits (72), Expect = 0.40
Identities = 10/51 (19%), Positives = 15/51 (29%), Gaps = 11/51 (21%)
Query: 175 GLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAV 225
G S I+E+ +E L G G+ +AR
Sbjct: 8 GNSAAIQEMNREVE----------AAAKRTSP-VFLTGEAGSPFETVARYF 47
Score = 29.5 bits (67), Expect = 1.9
Identities = 14/117 (11%), Positives = 33/117 (28%), Gaps = 36/117 (30%)
Query: 528 LLYGPPGTGKTLLARAVASQ---LDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQP 584
L G G+ +AR + + E+ A
Sbjct: 31 FLTGEAGSPFETVARYFHKNGTPWVSPARVEYLIDM-----------PMELLQKAEGG-- 77
Query: 585 CIIFMDEIDAIGGRRFSEGTSAD--REIQRTLMELLNQMDGFDSLGQVKMIMATNRP 639
++++ +I A R IQ + ++ + + V++I + +
Sbjct: 78 -VLYVGDI-------------AQYSRNIQTGITFIIGKAERCR----VRVIASCSYA 116
>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system
kinase, STRU genomics, joint center for structural
genomics, JCSG; 1.95A {Silicibacter SP}
Length = 208
Score = 32.0 bits (73), Expect = 0.42
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 212 GPPGTGKTLLARAVASQLDANFLKVV 237
G PG+GK+ L+ +A+ L A L
Sbjct: 29 GAPGSGKSTLSNPLAAALSAQGLPAE 54
Score = 32.0 bits (73), Expect = 0.42
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 531 GPPGTGKTLLARAVASQLDANFLKVV 556
G PG+GK+ L+ +A+ L A L
Sbjct: 29 GAPGSGKSTLSNPLAAALSAQGLPAE 54
>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI,
protein structure initiative; 1.90A {Geobacillus
stearothermophilus} SCOP: c.37.1.6
Length = 201
Score = 31.9 bits (73), Expect = 0.46
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 212 GPPGTGKTLLARAVASQLDANFLKVV 237
G +GKT LA ++ L + V
Sbjct: 29 GLSRSGKTTLANQLSQTLREQGISVC 54
Score = 31.9 bits (73), Expect = 0.46
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 531 GPPGTGKTLLARAVASQLDANFLKVV 556
G +GKT LA ++ L + V
Sbjct: 29 GLSRSGKTTLANQLSQTLREQGISVC 54
>3u1c_A Tropomyosin alpha-1 chain; anti-parallel coiled coil, contractIle
protein; 1.80A {Gallus gallus} PDB: 3u1a_A
Length = 101
Score = 30.6 bits (69), Expect = 0.48
Identities = 12/69 (17%), Positives = 27/69 (39%), Gaps = 8/69 (11%)
Query: 30 RLREMREQLKELTKQYDKSENDLKALQ---SVGQHDL-----LLHCVREQLKELTKQYDK 81
R + K ++ + E+D+ L+ V + LH + L + K
Sbjct: 24 RAEQAEADKKAAEERSKQLEDDIVQLEKQLRVTEDSRDQVLEELHKSEDSLLFAEENAAK 83
Query: 82 SENDLKALQ 90
+E+++ +L
Sbjct: 84 AESEVASLN 92
>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 = 31.4 bits (72), Expect = 0.51
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 7/49 (14%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARL-IREMF 576
L G G+GK+ LA+ + L L D I E L +RE+F
Sbjct: 12 LIGFMGSGKSSLAQELGLALKLEVLD------TDMIISERVGLSVREIF 54
Score = 29.8 bits (68), Expect = 2.0
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
L G G+GK+ LA+ + L L
Sbjct: 12 LIGFMGSGKSSLAQELGLALKLEVL 36
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 32.3 bits (72), Expect = 0.52
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 1/60 (1%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARLIREMFNYARNHQ 583
P LL G PG+GKT L A+ + N + V+ + + L++ H
Sbjct: 33 PTAFLLGGQPGSGKTSLRSAIFEETQGNVI-VIDNDTFKQQHPNFDELVKLYEKDVVKHV 91
Score = 31.1 bits (69), Expect = 1.0
Identities = 16/58 (27%), Positives = 24/58 (41%)
Query: 205 PKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLFVTSKEDMAILMGNQLKRRSTH 262
P LL G PG+GKT L A+ + N + + + F + L+ K H
Sbjct: 33 PTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQQHPNFDELVKLYEKDVVKH 90
>2lcq_A Putative toxin VAPC6; PIN domain, Zn ribbon domain, ribosome
biogenesis, metal BIN protein; NMR {Pyrococcus
horikoshii}
Length = 165
Score = 31.0 bits (70), Expect = 0.66
Identities = 19/107 (17%), Positives = 45/107 (42%), Gaps = 6/107 (5%)
Query: 1 MTTP-VVDEVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVG 59
TTP VV+E++ + + + + L +V+ + E ++ + Q K ++ L
Sbjct: 29 YTTPSVVEEIKDRESKIFLESLISAGKVK--IAEPSKESIDRIIQVAKETGEVNELSKA- 85
Query: 60 QHDLLLHCVREQLKELTKQYDKSENDLKALQSVGQVSLSTSVSKCWT 106
D+ + + +LK D + ++ +L + +L + K
Sbjct: 86 --DIEVLALAYELKGEIFSDDYNVQNIASLLGLRFRTLKRGIKKVIK 130
>2jk9_A SPRY domain-containing SOCS box protein 1; transcription
regulation, transcription; 1.79A {Homo sapiens} PDB:
3f2o_A 2fnj_A 2v24_A 2ihs_A
Length = 212
Score = 31.6 bits (71), Expect = 0.70
Identities = 8/32 (25%), Positives = 16/32 (50%)
Query: 356 DTLDPALLRPGRLDRKIEIPLPNEQARLAHTW 387
+ +P RLD +++P + +L H+W
Sbjct: 4 ELQGLDYCKPTRLDLLLDMPPVSYDVQLLHSW 35
>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 = 31.0 bits (71), Expect = 0.74
Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 7/49 (14%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARL-IREMF 576
L G PG+GK+ + R +A L L D I + I ++F
Sbjct: 7 LVGLPGSGKSTIGRRLAKALGVGLLD------TDVAIEQRTGRSIADIF 49
Score = 31.0 bits (71), Expect = 0.80
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
L G PG+GK+ + R +A L L
Sbjct: 7 LVGLPGSGKSTIGRRLAKALGVGLL 31
>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 = 32.2 bits (74), Expect = 0.75
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 199 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQL 229
R G+ PK G ++ GP G GKT LARA+A +
Sbjct: 511 RAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI 545
Score = 32.2 bits (74), Expect = 0.75
Identities = 16/35 (45%), Positives = 21/35 (60%), Gaps = 4/35 (11%)
Query: 518 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQL 548
R G+ PK G ++ GP G GKT LARA+A +
Sbjct: 511 RAGLKDPKRPIGSFIFLGPTGVGKTELARALAESI 545
>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 = 31.6 bits (72), Expect = 0.78
Identities = 18/109 (16%), Positives = 38/109 (34%), Gaps = 4/109 (3%)
Query: 432 RSEREYVTQEDFMKAVRKVSDNKKLDHCNSYRTEAGLFAIRSEREYVTQEDFMKAVRKVS 491
ER Y Q + + S + + +A + + T+ + +K + + S
Sbjct: 13 IEERTYPPQIPAQQELGDFSAYQSVL--PEPLRKAEKLLQETGIKESTKTNTLKKLLRFS 70
Query: 492 DNKKLESKLDYKPVI--ELPLLNPELFQRVGITPPKGCLLYGPPGTGKT 538
++ + + L + P + K +L+G G GKT
Sbjct: 71 VEAGGLTEENVVGKLQEILCDMLPSADKWQEPIHSKYIVLFGSTGAGKT 119
>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 = 31.6 bits (72), Expect = 0.79
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 209 LLYGPPGTGKTLLARAVASQL 229
++ G PG GKT +A +L
Sbjct: 46 IISGMPGIGKTTSVHCLAHEL 66
Score = 31.6 bits (72), Expect = 0.79
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 528 LLYGPPGTGKTLLARAVASQL 548
++ G PG GKT +A +L
Sbjct: 46 IISGMPGIGKTTSVHCLAHEL 66
>2efr_A General control protein GCN4 and tropomyosin 1 Al; destabilizing
cluster, hydrophobic core, contractIle protein; 1.80A
{Saccharomyces cerevisiae} PDB: 2efs_A 2d3e_A
Length = 155
Score = 30.7 bits (69), Expect = 0.89
Identities = 12/61 (19%), Positives = 30/61 (49%), Gaps = 6/61 (9%)
Query: 30 RLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSENDLKAL 89
R++++ ++++EL + EN++ L+ LL E+ + + + E +LK +
Sbjct: 1 RMKQLEDKVEELLSKNYHLENEVARLKK------LLERAEERAELSEGKSAELEEELKTV 54
Query: 90 Q 90
Sbjct: 55 T 55
>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 = 30.6 bits (70), Expect = 0.92
Identities = 9/49 (18%), Positives = 21/49 (42%), Gaps = 7/49 (14%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARL-IREMF 576
+ G G G T + R +A L F+ D ++ ++ + + ++
Sbjct: 7 MVGARGCGMTTVGRELARALGYEFVD------TDIFMQHTSGMTVADVV 49
Score = 30.6 bits (70), Expect = 1.2
Identities = 8/25 (32%), Positives = 12/25 (48%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
+ G G G T + R +A L F+
Sbjct: 7 MVGARGCGMTTVGRELARALGYEFV 31
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 30.6 bits (70), Expect = 1.0
Identities = 12/49 (24%), Positives = 16/49 (32%), Gaps = 7/49 (14%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARL-IREMF 576
L G G GKT + +A DK I + I +F
Sbjct: 10 LIGLMGAGKTSVGSQLAKLTKRILYD------SDKEIEKRTGADIAWIF 52
Score = 29.9 bits (68), Expect = 1.9
Identities = 7/25 (28%), Positives = 9/25 (36%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
L G G GKT + +A
Sbjct: 10 LIGLMGAGKTSVGSQLAKLTKRILY 34
>2v71_A Nuclear distribution protein NUDE-like 1; developmental protein,
nuclear protein, neurogenesis, cytosk LIS1 binding,
differentiation; 2.24A {Rattus norvegicus}
Length = 189
Score = 30.9 bits (69), Expect = 1.0
Identities = 17/92 (18%), Positives = 37/92 (40%), Gaps = 9/92 (9%)
Query: 8 EVRHKTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHC 67
E+ K Q +++ E E + RE+ +L+ Q ++ DL+A
Sbjct: 17 ELSMKYKQSFQEARDELVEFQEGSRELEAELEAQLVQAEQRNRDLQA---------DNQR 67
Query: 68 VREQLKELTKQYDKSENDLKALQSVGQVSLST 99
++ +++ L ++ + SV + LS
Sbjct: 68 LKYEVEALKEKLEHQYAQSYKQVSVLEDDLSQ 99
>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop
kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex
aeolicus}
Length = 168
Score = 30.5 bits (70), Expect = 1.1
Identities = 11/49 (22%), Positives = 22/49 (44%), Gaps = 7/49 (14%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARL-IREMF 576
L G +GK+ + ++ L+ F VD+ + + L I ++F
Sbjct: 5 LIGFMCSGKSTVGSLLSRSLNIPFYD------VDEEVQKREGLSIPQIF 47
Score = 29.0 bits (66), Expect = 3.9
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
L G +GK+ + ++ L+ F
Sbjct: 5 LIGFMCSGKSTVGSLLSRSLNIPFY 29
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 31.3 bits (70), Expect = 1.2
Identities = 31/203 (15%), Positives = 65/203 (32%), Gaps = 35/203 (17%)
Query: 407 VVKLSDSFNGADLRNVCTEAGLFAIRSEREYVTQEDFMKAVRKVSDNKKLDHCNSYRTEA 466
+VK+ DL G+ + S+R V A V + + H +
Sbjct: 59 LVKILKDTAAIDLETRQK-FGVLDVASKRWLVKPSAKNHAWGVVETHARKYHVALLEHD- 116
Query: 467 GLFAIRSEREYVTQEDFMKAVRKVSDNKKLESKLDYKPVIELPLLNPELFQRVGITPPKG 526
E +T +++ + V S++ + + L +
Sbjct: 117 -------EFGIITCDNW-RRVAVSSESVVYSDMAKLRTLRRLLKDGEPHVSSAKVV---- 164
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVSS-----------AIVDKYIGESARLIREM 575
L+ G PG GKT + + S+++ ++ A I + +R +
Sbjct: 165 -LVDGVPGCGKT---KEILSRVNFEEDLILVPGRQAAEMIRRRANASGIIVATKDNVRTV 220
Query: 576 FNYARNHQP------CIIFMDEI 592
++ N+ +F+DE
Sbjct: 221 DSFLMNYGKGARCQFKRLFIDEG 243
Score = 30.5 bits (68), Expect = 2.0
Identities = 11/60 (18%), Positives = 23/60 (38%), Gaps = 8/60 (13%)
Query: 180 IRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFLKVVSS 239
+ +LR + L + L+ G PG GKT + + S+++ ++
Sbjct: 141 MAKLRTLRRLLKDGEPHVSSAKVV-----LVDGVPGCGKT---KEILSRVNFEEDLILVP 192
>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 = 30.2 bits (69), Expect = 1.4
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 7/49 (14%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARL-IREMF 576
L GP G GK+ + R +A QL+ F D+ I + + +F
Sbjct: 9 LVGPMGAGKSTIGRQLAQQLNMEFYD------SDQEIEKRTGADVGWVF 51
Score = 29.4 bits (67), Expect = 2.7
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
L GP G GK+ + R +A QL+ F
Sbjct: 9 LVGPMGAGKSTIGRQLAQQLNMEFY 33
>2wfw_A ARC; ATP-binding protein, proteasomal atpases, PAN, AAA,
ATP-binding, nucleotide-binding; 1.60A {Rhodococcus
erythropolis} PDB: 3fp9_A
Length = 153
Score = 30.0 bits (67), Expect = 1.4
Identities = 20/112 (17%), Positives = 30/112 (26%), Gaps = 4/112 (3%)
Query: 111 ATNGPRYVVGCRRQLDKAKLKSGTRVALDMTTLTIMRYLPREVDPLVYNMSHEDPGDITY 170
T+G + + C +D L G V L+ + +V + D G
Sbjct: 25 FTSGRKMRLTCSPNIDTDTLALGQTVRLNEALTIVEAGTYEQVGEISTLREVLDDGLRAL 84
Query: 171 SAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLA 222
E+I L PL I G +LL
Sbjct: 85 VVGHADEERIVWLAA----PLAAVFADPEADIIAYDADSPTRKLRPGDSLLV 132
>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 = 30.3 bits (69), Expect = 1.5
Identities = 17/49 (34%), Positives = 24/49 (48%), Gaps = 7/49 (14%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKVVSSAIVDKYIGESARL-IREMF 576
L G G GKT L +A A +L+ F+ +D YI E + E+F
Sbjct: 30 LTGYMGAGKTTLGKAFARKLNVPFID------LDWYIEERFHKTVGELF 72
Score = 28.7 bits (65), Expect = 5.3
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 210 LYGPPGTGKTLLARAVASQLDANFL 234
L G G GKT L +A A +L+ F+
Sbjct: 30 LTGYMGAGKTTLGKAFARKLNVPFI 54
>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 = 30.3 bits (68), Expect = 1.5
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 209 LLYGPPGTGKTLLARAVASQLD 230
++ GP G GK+ + +A+QLD
Sbjct: 6 IITGPAGVGKSTTCKRLAAQLD 27
Score = 30.3 bits (68), Expect = 1.5
Identities = 9/22 (40%), Positives = 15/22 (68%)
Query: 528 LLYGPPGTGKTLLARAVASQLD 549
++ GP G GK+ + +A+QLD
Sbjct: 6 IITGPAGVGKSTTCKRLAAQLD 27
>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome
segregation, cell adhesion, kleisin, MIT cell cycle;
HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP:
c.37.1.12
Length = 430
Score = 30.8 bits (70), Expect = 1.9
Identities = 6/81 (7%), Positives = 22/81 (27%), Gaps = 7/81 (8%)
Query: 12 KTLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQ 71
+ + K E R + +LK + + +
Sbjct: 184 ELKEKIEKLSKSATESIKNRRRIHGELKTYKSPGLEVLFQGPRGSRYDE-------AEGR 236
Query: 72 LKELTKQYDKSENDLKALQSV 92
+ + + ++ + + K + +
Sbjct: 237 FEVINNETEQLKAEEKKILNQ 257
>1jad_A PLC-beta, phospholipase C beta; alpha helical coiled coil,
hydrolase; 2.40A {Meleagris gallopavo} SCOP: h.4.10.1
Length = 251
Score = 30.5 bits (68), Expect = 1.9
Identities = 14/87 (16%), Positives = 32/87 (36%), Gaps = 8/87 (9%)
Query: 12 KTLQDYRKKLTEHAEVEGRLREMRE----QLKELTKQYDKSENDLKALQSVGQHDLLLHC 67
+ + ++ ++ E++E +L L ++Y K + Q +
Sbjct: 57 QKYSVLFLEPVYPRGLDSQVVELKERLEMELIHLGEEYHDGIRRRKEQHATEQTAKITEL 116
Query: 68 VRE----QLKELTKQYDKSENDLKALQ 90
RE +LK L + + + D+K
Sbjct: 117 AREKQIAELKALKESSESNIKDIKKKL 143
>1fzc_C Fibrin; blood coagulation, plasma protein, crosslinking; HET: NAG
MAN; 2.30A {Homo sapiens} SCOP: d.171.1.1 h.1.8.1 PDB:
1fzb_C* 1fza_C* 1fze_C* 1fzf_C* 1fzg_C* 2xnx_C 2xny_C
3e1i_C* 2hlo_C* 1n8e_C 1n86_C* 2q9i_C* 2z4e_C* 2h43_C*
2hod_C* 2hpc_C* 3h32_C* 1re3_C* 1ltj_C* 1lt9_C* ...
Length = 319
Score = 30.5 bits (69), Expect = 2.0
Identities = 8/61 (13%), Positives = 27/61 (44%), Gaps = 1/61 (1%)
Query: 33 EMREQLKELTKQYDKSENDLKALQS-VGQHDLLLHCVREQLKELTKQYDKSENDLKALQS 91
+M E++ + ++ ++ LQ ++ + ++E++ +L Q + D +
Sbjct: 1 KMLEEIMKYEASILTHDSSIRYLQEIYNSNNQKIVNLKEKVAQLEAQCQEPCKDTVQIHD 60
Query: 92 V 92
+
Sbjct: 61 I 61
>2zqm_A Prefoldin beta subunit 1; chaperone; HET: CIT; 1.90A
{Thermococcus SP} PDB: 2zdi_A
Length = 117
Score = 29.1 bits (65), Expect = 2.0
Identities = 16/76 (21%), Positives = 34/76 (44%), Gaps = 5/76 (6%)
Query: 15 QDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKE 74
Q + + + +V+ L E ++ L E+ D D ++VG ++ + + E
Sbjct: 20 QQLQLVVQQKQKVQLELTEAKKALDEIESLPD----DAVVYKTVGTL-IVKTTKDKAVAE 74
Query: 75 LTKQYDKSENDLKALQ 90
L ++ + E L AL+
Sbjct: 75 LKEKIETLEVRLNALE 90
>3bos_A Putative DNA replication factor; P-loop containing nucleoside
triphosphate hydrolases, struct genomics; HET: MSE CDP;
1.75A {Shewanella amazonensis} PDB: 3sc3_A
Length = 242
Score = 29.9 bits (68), Expect = 2.2
Identities = 19/160 (11%), Positives = 48/160 (30%), Gaps = 43/160 (26%)
Query: 529 LYGPPGTGKTLLARAVASQLDANFLKV--VSSAIVDKYIGESARLIREMFNYARNHQPCI 586
L+GP +G+T L A ++ + + + I + +
Sbjct: 57 LWGPVKSGRTHLIHAACARANELERRSFYIPLGIHASI-------STALLEGLEQFD--L 107
Query: 587 IFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSL---GQVKMIMATNRPDTLD 643
I +D++DA+ G + + ++ + + +I++ +
Sbjct: 108 ICIDDVDAVAGH------------PLWEEAIFDL---YNRVAEQKRGSLIVSASAS---- 148
Query: 644 PALLRPGRLDR---------KIEIPLPNEQARLEILKIHA 674
P L ++ + +L L+ A
Sbjct: 149 PMEA-GFVLPDLVSRMHWGLTYQLQPMMDDEKLAALQRRA 187
>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding
motif, ATP- binding, nucleotide-binding, transferase;
HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB:
3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*
Length = 260
Score = 30.2 bits (68), Expect = 2.2
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANFLKVV 237
+L G PG GK+ ++ +A L N + V+
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVI 36
Score = 30.2 bits (68), Expect = 2.2
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVV 556
+L G PG GK+ ++ +A L N + V+
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVI 36
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 30.7 bits (69), Expect = 2.3
Identities = 21/106 (19%), Positives = 32/106 (30%), Gaps = 12/106 (11%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVV-----SSAIVDKYIGESARLIREMFNYARN 581
L+ GPPGTGKT+ + + L + S+ VD +L R
Sbjct: 378 SLIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVDHLAA---KLRDLGLKVVRL 434
Query: 582 HQPCIIFMDEIDAIGGRRFSEGTSADREIQRTLMELLNQMDGFDSL 627
++ + R + L LL D L
Sbjct: 435 TAKSREDVESSV----SNLALHNLVGRGAKGELKNLLKLKDEVGEL 476
Score = 30.7 bits (69), Expect = 2.4
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 208 CLLYGPPGTGKTLLARAVASQL 229
L+ GPPGTGKT+ + + L
Sbjct: 378 SLIQGPPGTGKTVTSATIVYHL 399
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay,
zinc-finger, ATP-binding, metal-BIN UPF2, UPF1,
helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A
2iyk_A
Length = 800
Score = 30.7 bits (69), Expect = 2.3
Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 5/57 (8%)
Query: 176 LSEQIRELREVIELPLLNPELFQR---VGITPPKGCLLYGPPGTGKTLLARAVASQL 229
+ Q+ + LP LN Q + L+ GPPGTGKT+ + + L
Sbjct: 341 IKCQLPKRFTAQGLPDLNHS--QVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHL 395
Score = 29.9 bits (67), Expect = 3.7
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 527 CLLYGPPGTGKTLLARAVASQL 548
L+ GPPGTGKT+ + + L
Sbjct: 374 SLIQGPPGTGKTVTSATIVYHL 395
>2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor,
AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA
recombination; HET: T27; 1.80A {Human immunodeficiency
virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B*
3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B*
3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B*
1n5y_B* 1bqm_B* 1n6q_B* ...
Length = 428
Score = 30.5 bits (69), Expect = 2.4
Identities = 29/81 (35%), Positives = 38/81 (46%), Gaps = 9/81 (11%)
Query: 21 LTEHAEVEGRLREMREQLKELTK--QYDKSENDLKALQSVGQHDLLLHCVREQLKEL-TK 77
LTE AE+E L E RE LKE YD S++ + +Q GQ +E K L T
Sbjct: 295 LTEEAELE--LAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTG 352
Query: 78 QYDKSE----NDLKALQSVGQ 94
+Y + ND+K L Q
Sbjct: 353 KYARMRGAHTNDVKQLTEAVQ 373
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein,
ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus
radiodurans} PDB: 3gp8_A 3gpl_A*
Length = 574
Score = 30.5 bits (69), Expect = 2.5
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 527 CLLYGPPGTGKTLLARAVASQLDANFLKVVSSA 559
+L G PGTGK+ +AVA ++ L+V A
Sbjct: 207 VVLTGGPGTGKSTTTKAVADLAESLGLEVGLCA 239
Score = 29.7 bits (67), Expect = 3.7
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 208 CLLYGPPGTGKTLLARAVASQLDANFLKVV 237
+L G PGTGK+ +AVA ++ L+V
Sbjct: 207 VVLTGGPGTGKSTTTKAVADLAESLGLEVG 236
>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix,
structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*
Length = 77
Score = 27.9 bits (63), Expect = 2.5
Identities = 13/67 (19%), Positives = 30/67 (44%), Gaps = 10/67 (14%)
Query: 31 LREMREQ--------LKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKS 82
+R++R+Q L+E + Y DL ++ +++ L +++ E +Q
Sbjct: 11 MRDVRQQYESVAAKNLQEAEEWYKSKFADLS--EAANRNNDALRQAKQESTEYRRQVQSL 68
Query: 83 ENDLKAL 89
++ AL
Sbjct: 69 TMEVDAL 75
>3qx3_A DNA topoisomerase 2-beta; toprim domain, winged-helix domain,
coiled-coil domain, DNA and cleavage, nucleus; HET: DNA
EVP; 2.16A {Homo sapiens}
Length = 803
Score = 30.1 bits (67), Expect = 2.9
Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 4/68 (5%)
Query: 35 REQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQLKELTKQYDKSENDLKALQSVGQ 94
+E+++EL KQ D ++ L+ DL +E L ++ DK E+ + + G
Sbjct: 733 KEKVEELIKQRDAKGREVNDLKRKSPSDL----WKEDLAAFVEELDKVESQEREDGAPGF 788
Query: 95 VSLSTSVS 102
S+S
Sbjct: 789 SSISAHHH 796
>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent
proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A*
1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E*
1ht1_E* 1ht2_E*
Length = 444
Score = 30.0 bits (68), Expect = 3.0
Identities = 16/32 (50%), Positives = 21/32 (65%)
Query: 205 PKGCLLYGPPGTGKTLLARAVASQLDANFLKV 236
PK L+ GP G GKT +AR +A +A F+KV
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKV 81
Score = 30.0 bits (68), Expect = 3.0
Identities = 16/32 (50%), Positives = 21/32 (65%)
Query: 524 PKGCLLYGPPGTGKTLLARAVASQLDANFLKV 555
PK L+ GP G GKT +AR +A +A F+KV
Sbjct: 50 PKNILMIGPTGVGKTEIARRLAKLANAPFIKV 81
>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA
helicase, acetyltransferase, GCN5 acetyltransferase;
HET: ACO ADP; 2.35A {Escherichia coli K12}
Length = 671
Score = 30.0 bits (67), Expect = 3.4
Identities = 20/87 (22%), Positives = 38/87 (43%), Gaps = 4/87 (4%)
Query: 514 ELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANFL----KVVSSAIVDKYIGESA 569
+L +++ PP + G GK+ LA + S++ + S+ ++ ++ GE
Sbjct: 182 QLLKQLMTMPPGVAAVTAARGRGKSALAGQLISRIAGRAIVTAPAKASTDVLAQFAGEKF 241
Query: 570 RLIREMFNYARNHQPCIIFMDEIDAIG 596
R I A + Q + +DE AI
Sbjct: 242 RFIAPDALLASDEQADWLVVDEAAAIP 268
>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation,
nucleotide metab transferase; HET: C5P; 1.50A {Thermus
thermophilus} PDB: 3akc_A* 3akd_A*
Length = 208
Score = 28.9 bits (66), Expect = 4.0
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 212 GPPGTGKTLLARAVASQLDANFL 234
GP +GK+ +AR VA+ L +L
Sbjct: 9 GPSASGKSSVARRVAAALGVPYL 31
Score = 28.9 bits (66), Expect = 4.0
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 531 GPPGTGKTLLARAVASQLDANFL 553
GP +GK+ +AR VA+ L +L
Sbjct: 9 GPSASGKSSVARRVAAALGVPYL 31
>2b9c_A Striated-muscle alpha tropomyosin; alpha-helix, coiled coil,
alanine, axial stagger, radius, SIDE-chain packing,
crystal packing; 2.30A {Rattus norvegicus} SCOP:
h.1.5.1
Length = 147
Score = 28.5 bits (63), Expect = 4.1
Identities = 15/70 (21%), Positives = 31/70 (44%), Gaps = 1/70 (1%)
Query: 23 EHAEVEGRLREMREQLKELTKQYDKSENDLKALQS-VGQHDLLLHCVREQLKELTKQYDK 81
E + RL ++L+E K D+SE +K ++S + + + QLKE +
Sbjct: 11 ELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAED 70
Query: 82 SENDLKALQS 91
++ + +
Sbjct: 71 ADRKYEEVAR 80
>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 = 29.1 bits (66), Expect = 4.5
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 212 GPPGTGKTLLARAVA 226
GP G+GKT LA A A
Sbjct: 29 GPAGSGKTYLAMAKA 43
Score = 29.1 bits (66), Expect = 4.5
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 531 GPPGTGKTLLARAVA 545
GP G+GKT LA A A
Sbjct: 29 GPAGSGKTYLAMAKA 43
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 28.9 bits (65), Expect = 5.0
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 206 KGCLLYGPPGTGKTLLARAVASQLDANFLKVVSSLF 241
K + P G+GKT +A A ++L L VV +L
Sbjct: 109 KRGCIVLPTGSGKTHVAMAAINELSTPTLIVVPTLA 144
Score = 28.5 bits (64), Expect = 7.9
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 525 KGCLLYGPPGTGKTLLARAVASQLDANFLKVVSS 558
K + P G+GKT +A A ++L L VV +
Sbjct: 109 KRGCIVLPTGSGKTHVAMAAINELSTPTLIVVPT 142
>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics
center for infectious disease, ssgcid, ADP, DCMP, D
transferase; 2.00A {Mycobacterium smegmatis} PDB: 3r8c_A
4die_A*
Length = 233
Score = 29.0 bits (66), Expect = 5.1
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 212 GPPGTGKTLLARAVASQLDANFL 234
GP GTGK+ ++R +A L A +L
Sbjct: 16 GPAGTGKSSVSRGLARALGARYL 38
Score = 29.0 bits (66), Expect = 5.1
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 531 GPPGTGKTLLARAVASQLDANFL 553
GP GTGK+ ++R +A L A +L
Sbjct: 16 GPAGTGKSSVSRGLARALGARYL 38
>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase,
transferase; NMR {Streptococcus pneumoniae} SCOP:
c.37.1.1
Length = 236
Score = 29.0 bits (66), Expect = 5.6
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 212 GPPGTGKTLLARAVASQLDANFL 234
GP +GK+ +A+ +A +L
Sbjct: 23 GPASSGKSTVAKIIAKDFGFTYL 45
Score = 29.0 bits (66), Expect = 5.6
Identities = 7/23 (30%), Positives = 13/23 (56%)
Query: 531 GPPGTGKTLLARAVASQLDANFL 553
GP +GK+ +A+ +A +L
Sbjct: 23 GPASSGKSTVAKIIAKDFGFTYL 45
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI,
nonnucleoside inhibitor, AIDS, HIV, rilpivirine,
diarylpyrimidine, DAPY, DNA recombination; HET: T27;
1.80A {Human immunodeficiency virus 1} PDB: 3is9_A*
3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A
1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A*
2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ...
Length = 557
Score = 29.3 bits (66), Expect = 5.6
Identities = 32/82 (39%), Positives = 39/82 (47%), Gaps = 11/82 (13%)
Query: 21 LTEHAEVEGRLREMREQLKELTKQ--YDKSENDLKA-LQSVGQHDLLLHCVREQLKEL-T 76
LTE AE+E L E RE LKE YD S+ DL A +Q GQ +E K L T
Sbjct: 297 LTEEAELE--LAENREILKEPVHGVYYDPSK-DLIAEIQKQGQGQWTYQIYQEPFKNLKT 353
Query: 77 KQYDKS----ENDLKALQSVGQ 94
+Y + ND+K L Q
Sbjct: 354 GKYARMRGAHTNDVKQLTEAVQ 375
>1nx8_A CARC, carbapenem synthase; jelly roll, unknown function; HET: AKG
N7P; 2.30A {Pectobacterium carotovorum} SCOP: b.82.2.8
PDB: 1nx4_A*
Length = 273
Score = 28.9 bits (65), Expect = 5.9
Identities = 12/122 (9%), Positives = 27/122 (22%), Gaps = 30/122 (24%)
Query: 203 TPPKGCLLYG---PP--GTGKTLLA--------------------RAVASQLDANFLKVV 237
+ LY G T + L+ + V
Sbjct: 109 SQVDQVFLYAAEIKNVKFRGATTVCDHALACQEMPAHLLRVLEEETFEVRVLERGYYVDV 168
Query: 238 SSLFVTSKEDMAILMGNQLKRRS--THHLEKTYFPFYSSAIVDKYIGESARLIREMFNYA 295
S + + R+ ++ + IV E+ +E+ +
Sbjct: 169 SP---DGWFKVPVFTDLGWVRKMLIYFPFDEGQPASWEPRIVGFTDHETQAFFQELGAFL 225
Query: 296 RN 297
+
Sbjct: 226 KQ 227
>4fi5_A Nucleoprotein; structural genomics, niaid, national institute of
allergy AN infectious diseases; 2.20A {Hantaan virus}
Length = 113
Score = 27.7 bits (61), Expect = 6.0
Identities = 14/66 (21%), Positives = 40/66 (60%), Gaps = 4/66 (6%)
Query: 13 TLQDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLLHCVREQL 72
T+++ ++++ H EG+L R+++++ KQY+K ++L +++ + + ++ ++
Sbjct: 23 TMEELQREINAH---EGQLVIARQKVRDAEKQYEKDPDELN-KRTLTDREGVAVSIQAKI 78
Query: 73 KELTKQ 78
EL +Q
Sbjct: 79 DELKRQ 84
>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 = 29.0 bits (66), Expect = 6.1
Identities = 11/56 (19%), Positives = 22/56 (39%), Gaps = 11/56 (19%)
Query: 170 YSAIGGLSEQIRELREVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAV 225
S +++E+ E I+ ++ L+ G G GK ++AR +
Sbjct: 136 EEEYVFESPKMKEILEKIK----------KISCAECP-VLITGESGVGKEVVARLI 180
>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus
thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*
Length = 311
Score = 28.7 bits (65), Expect = 6.3
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 4/35 (11%)
Query: 199 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQL 229
R G+ P G L+ GP G GKT LA+ +A+ L
Sbjct: 37 RAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL 71
Score = 28.7 bits (65), Expect = 6.3
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 4/35 (11%)
Query: 518 RVGITPPK---GCLLY-GPPGTGKTLLARAVASQL 548
R G+ P G L+ GP G GKT LA+ +A+ L
Sbjct: 37 RAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATL 71
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD,
hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A*
2gk7_A 2xzo_A* 2xzp_A
Length = 624
Score = 29.0 bits (65), Expect = 6.3
Identities = 16/57 (28%), Positives = 24/57 (42%), Gaps = 5/57 (8%)
Query: 176 LSEQIRELREVIELPLLNPELFQRVGIT---PPKGCLLYGPPGTGKTLLARAVASQL 229
+ Q+ + LP LN Q + L+ GPPGTGKT+ + + L
Sbjct: 165 IKCQLPKRFTAQGLPDLNHS--QVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHL 219
>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic
region; yeast protein, ATP binding protein; 2.25A
{Saccharomyces cerevisiae} SCOP: c.37.1.6
Length = 290
Score = 28.8 bits (63), Expect = 6.5
Identities = 11/92 (11%), Positives = 24/92 (26%), Gaps = 3/92 (3%)
Query: 493 NKKLESKLDYKPVIELPLLNPELFQRVGITPPKGCLLYGPPGTGKTLLARAVASQLDANF 552
+K ++ + + G P GP G+GK+ + + + L +
Sbjct: 3 DKSKTVLDYTIEFLDKYI---PEWFETGNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKY 59
Query: 553 LKVVSSAIVDKYIGESARLIREMFNYARNHQP 584
S + N +
Sbjct: 60 GGEKSIGYASIDDFYLTHEDQLKLNEQFKNNK 91
>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide
monophosphate kinase,, transferase; 1.75A {Escherichia
coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A*
1kdt_A* 2cmk_A* 2fem_A 2feo_A*
Length = 227
Score = 28.6 bits (65), Expect = 6.6
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 212 GPPGTGKTLLARAVASQLDANFL 234
GP G GK L +A+A L + L
Sbjct: 12 GPSGAGKGTLCKAMAEALQWHLL 34
Score = 28.6 bits (65), Expect = 6.6
Identities = 10/23 (43%), Positives = 13/23 (56%)
Query: 531 GPPGTGKTLLARAVASQLDANFL 553
GP G GK L +A+A L + L
Sbjct: 12 GPSGAGKGTLCKAMAEALQWHLL 34
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 28.8 bits (64), Expect = 7.3
Identities = 23/101 (22%), Positives = 35/101 (34%), Gaps = 6/101 (5%)
Query: 528 LLYGPPGTGKTLLARAVASQL--DANFLKVVSSAIVDKYIGESARLIREMFNYARNHQPC 585
L+ G PGTGKT +A +A L D F + S I + ++ L +
Sbjct: 74 LIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEALTQAFRRSIGVRIKA 133
Query: 586 IIFMD----EIDAIGGRRFSEGTSADREIQRTLMELLNQMD 622
EID I R + E+ Q++
Sbjct: 134 GAVHTVSLHEIDVINSRTQGFLALFSGDTGEIKSEVREQIN 174
>2y3a_B Phosphatidylinositol 3-kinase regulatory subunit; transferase,
phosphoinositide 3-kinase, RTK; HET: GD9; 3.30A {Mus
musculus}
Length = 302
Score = 28.5 bits (63), Expect = 7.7
Identities = 13/70 (18%), Positives = 27/70 (38%), Gaps = 1/70 (1%)
Query: 15 QDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSENDLKAL-QSVGQHDLLLHCVREQLK 73
QD K V +L+ +Q ++ +++YD+ + Q + + E +K
Sbjct: 4 QDQVVKEDSVEAVGAQLKVYHQQYQDKSREYDQLYEEYTRTSQELQMKRTAIEAFNETIK 63
Query: 74 ELTKQYDKSE 83
+Q E
Sbjct: 64 IFEEQGQTQE 73
>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2
function project, S2F, unknown function; HET: ADP; 1.70A
{Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A
Length = 158
Score = 28.0 bits (63), Expect = 7.7
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 209 LLYGPPGTGKTLLARAVASQLD 230
L G G GKT L R + +
Sbjct: 37 YLNGDLGAGKTTLTRGMLQGIG 58
Score = 28.0 bits (63), Expect = 7.7
Identities = 8/22 (36%), Positives = 10/22 (45%)
Query: 528 LLYGPPGTGKTLLARAVASQLD 549
L G G GKT L R + +
Sbjct: 37 YLNGDLGAGKTTLTRGMLQGIG 58
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 28.0 bits (62), Expect = 7.8
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFL 234
+ GP G GKT A + +L +F+
Sbjct: 9 WINGPFGVGKTHTAHTLHERLPGSFV 34
Score = 28.0 bits (62), Expect = 7.8
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFL 553
+ GP G GKT A + +L +F+
Sbjct: 9 WINGPFGVGKTHTAHTLHERLPGSFV 34
>1a31_A Protein (topoisomerase I); topoisomerase I/DNA, DNA, isomerase/DNA
complex; HET: DNA 5IU PTR; 2.10A {Homo sapiens} SCOP:
d.163.1.2 e.15.1.1 PDB: 1k4t_A* 1k4s_A* 1sc7_A* 1t8i_A*
1tl8_A* 1seu_A* 1a35_A* 1a36_A* 1r49_A* 1rrj_A* 1nh3_A*
1lpq_A* 1rr8_C* 1ej9_A*
Length = 591
Score = 29.0 bits (64), Expect = 7.9
Identities = 15/100 (15%), Positives = 30/100 (30%), Gaps = 1/100 (1%)
Query: 7 DEVRHKTLQDYRKKLTEH-AEVEGRLREMREQLKELTKQYDKSENDLKALQSVGQHDLLL 65
KT + L + +L + R LK ++ + +
Sbjct: 459 QRAPPKTFEKSMMNLQTKIDAKKEQLADARRDLKSAKADAKVMKDAKTKKVVESKKKAVQ 518
Query: 66 HCVREQLKELTKQYDKSENDLKALQSVGQVSLSTSVSKCW 105
+ +K + D+ EN AL + L ++ W
Sbjct: 519 RLEEQLMKLEVQATDREENKQIALGTSKLNYLDPRITVAW 558
>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop,
transferase; HET: ADP; 2.33A {Enterobacteria phage T4}
SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A*
2ia5_A
Length = 301
Score = 28.5 bits (63), Expect = 8.3
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSS 239
L G PG+GK+ AR ++ ++
Sbjct: 6 LTIGCPGSGKSTWAREFIAKNPG--FYNINR 34
Score = 28.5 bits (63), Expect = 8.3
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSS 558
L G PG+GK+ AR ++ ++
Sbjct: 6 LTIGCPGSGKSTWAREFIAKNPG--FYNINR 34
>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4; 2.30A
{Staphylococcus aureus}
Length = 219
Score = 28.2 bits (64), Expect = 9.2
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 212 GPPGTGKTLLARAVASQLDANFL 234
GP GK+ +A+ VAS+L ++
Sbjct: 10 GPAAAGKSTIAKRVASELSMIYV 32
Score = 28.2 bits (64), Expect = 9.2
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 531 GPPGTGKTLLARAVASQLDANFL 553
GP GK+ +A+ VAS+L ++
Sbjct: 10 GPAAAGKSTIAKRVASELSMIYV 32
>2aze_A Transcription factor DP-1; coiled coil, beta sandwich, cell
cycle, transcription; 2.55A {Homo sapiens} SCOP:
e.63.1.1
Length = 155
Score = 27.7 bits (61), Expect = 9.6
Identities = 9/36 (25%), Positives = 17/36 (47%)
Query: 15 QDYRKKLTEHAEVEGRLREMREQLKELTKQYDKSEN 50
Q+ + E R+++ + QL+EL Q +N
Sbjct: 5 QECQNLEVERQRRLERIKQKQSQLQELILQQIAFKN 40
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 27.8 bits (62), Expect = 9.9
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 209 LLYGPPGTGKTLLARAVASQLDANFLKVVSS 239
L G PG+GK+ AR ++ ++
Sbjct: 6 LTIGCPGSGKSTWAREFIAKNPG--FYNINR 34
Score = 27.8 bits (62), Expect = 9.9
Identities = 8/31 (25%), Positives = 14/31 (45%), Gaps = 2/31 (6%)
Query: 528 LLYGPPGTGKTLLARAVASQLDANFLKVVSS 558
L G PG+GK+ AR ++ ++
Sbjct: 6 LTIGCPGSGKSTWAREFIAKNPG--FYNINR 34
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
0.319 0.136 0.390
Gapped
Lambda K H
0.267 0.0529 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 11,481,213
Number of extensions: 730020
Number of successful extensions: 2966
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2791
Number of HSP's successfully gapped: 399
Length of query: 741
Length of database: 6,701,793
Length adjustment: 101
Effective length of query: 640
Effective length of database: 3,881,772
Effective search space: 2484334080
Effective search space used: 2484334080
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: 61 (27.7 bits)