RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6716
(371 letters)
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 383 bits (987), Expect = e-134
Identities = 121/309 (39%), Positives = 181/309 (58%), Gaps = 21/309 (6%)
Query: 62 KKLARNILSEVLKAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLV 121
+KL + IL E+++ V+W DIAG D AK L E ++LPS+ P F LR P KG+LL
Sbjct: 1 QKLVQLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLF 60
Query: 122 GPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFD 181
GPPG GKT+LA+A ATE + F NI++++LTSK+ GD EKL+R LF +A+ + PSI+F D
Sbjct: 61 GPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFID 120
Query: 182 EIDSMCSHRSTS-TDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFR 240
E+DS+ S RS+S + +RR+K+E L + DGL + D +++LAATN P +LDEA
Sbjct: 121 EVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGD---RIVVLAATNRPQELDEAAL 177
Query: 241 RRLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYS 300
RR KR+YV +PD+ TR LL LQ D + LA+ +GYS
Sbjct: 178 RRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLD------------TEALRRLAKITDGYS 225
Query: 301 SADITIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAIVQADFDEAVRNCPKTVRPED 360
+D+T + +DAA +R + +K + + I + DF +++ ++V P+
Sbjct: 226 GSDLTALAKDAALEPIRELNVEQ----VKCLDISAMRA-ITEQDFHSSLKRIRRSVAPQS 280
Query: 361 AEKFTDWIK 369
+ W +
Sbjct: 281 LNSYEKWSQ 289
>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 = 382 bits (982), Expect = e-132
Identities = 112/370 (30%), Positives = 191/370 (51%), Gaps = 27/370 (7%)
Query: 6 NNHARNQFPTHHLPGSLINNLTPSTPLLNIIQLNQDKPVNEMYEAILKKLKLDPE----- 60
++H + ++ P P + + N + E
Sbjct: 3 HHHHHSSGVDLGTENLYFQSMVPPIPKQDGGEQNGGMQCKPYGAGPTEPAHPVDERLKNL 62
Query: 61 EKKLARNILSEVLKAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLL 120
E K+ I++E++ V W DIAG++ AK + E +V P + P F LR P KG+LL
Sbjct: 63 EPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGPPKGILL 122
Query: 121 VGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFF 180
GPPGTGKT++ K A+++ + FF+I++S+LTSKW G+ EK++R LF +A+ P+++F
Sbjct: 123 FGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFI 182
Query: 181 DEIDSMCSHRSTS-TDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAF 239
DEIDS+ S R + +RR+K+E L Q+DG + +L++ ATN P ++DEA
Sbjct: 183 DEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATT----SSEDRILVVGATNRPQEIDEAA 238
Query: 240 RRRLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGY 299
RRRL KR+Y+P+P+ + R ++ + + + IE + ++ + +
Sbjct: 239 RRRLVKRLYIPLPEASARKQIVINLMSKEQCCLS------------EEEIEQIVQQSDAF 286
Query: 300 SSADITIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAIVQADFDEAVRNCPKTVRPE 359
S AD+T +CR+A+ +R + + I ++ + I DF+ A R +V P+
Sbjct: 287 SGADMTQLCREASLGPIRSLQTAD----IATITPDQV-RPIAYIDFENAFRTVRPSVSPK 341
Query: 360 DAEKFTDWIK 369
D E + +W K
Sbjct: 342 DLELYENWNK 351
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 382 bits (983), Expect = e-132
Identities = 121/332 (36%), Positives = 182/332 (54%), Gaps = 22/332 (6%)
Query: 39 NQDKPVNEMYEAILKKLKLDPEEKKLARNILSEVLKAETNVKWADIAGLDDAKDLLYEAI 98
N+ + LA I++E++ T VK+ DIAG D AK L E +
Sbjct: 72 NKPSTPTTATRKKKDLKNFRNVDSNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIV 131
Query: 99 VLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGD 158
+LPS+ P F LR P +G+LL GPPG GKTMLAKA A E+ + FFNI++++LTSK+ G+
Sbjct: 132 ILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGE 191
Query: 159 SEKLIRLLFLLAKELAPSIVFFDEIDSMCSHRSTS-TDVTRRMKSELLCQMDGLASVSNE 217
EKL+R LF +A+EL PSI+F D++DS+ R D +RR+K+E L + DG+ S
Sbjct: 192 GEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQS---- 247
Query: 218 DPNKSVLILAATNFPWDLDEAFRRRLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIE 277
+ VL++ ATN P +LDEA RR KR+YV +P++ TR+ LL L
Sbjct: 248 AGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLT---- 303
Query: 278 VLNVKVDKDVNIEVLAERLEGYSSADITIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELD 337
+ LA +GYS +D+T + +DAA +R + +K++ E+
Sbjct: 304 --------QKELAQLARMTDGYSGSDLTALAKDAALGPIRELKPEQ----VKNMSASEMR 351
Query: 338 KAIVQADFDEAVRNCPKTVRPEDAEKFTDWIK 369
I +DF E+++ ++V P+ E + W K
Sbjct: 352 -NIRLSDFTESLKKIKRSVSPQTLEAYIRWNK 382
>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 = 373 bits (961), Expect = e-130
Identities = 118/330 (35%), Positives = 179/330 (54%), Gaps = 44/330 (13%)
Query: 67 NILSEVLKAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGT 126
+ + +L + NVKW D+AGL+ AK+ L EA++LP P F R+P G+LL GPPGT
Sbjct: 3 DPFTAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGT 62
Query: 127 GKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSM 186
GK+ LAKA ATE S FF+++SS L SKW G+SEKL++ LF +A+E PSI+F D++D++
Sbjct: 63 GKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDAL 122
Query: 187 CSHRSTS-TDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRRRLEK 245
R ++ +RR+K+ELL QM+G+ + ++ VL+L ATN PW LD A RRR E+
Sbjct: 123 TGTRGEGESEASRRIKTELLVQMNGVGN-----DSQGVLVLGATNIPWQLDSAIRRRFER 177
Query: 246 RIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADIT 305
RIY+P+PD A R ++ I + + V + L EGYS +DI
Sbjct: 178 RIYIPLPDLAARTTMFEINVGDTPC------------VLTKEDYRTLGAMTEGYSGSDIA 225
Query: 306 IVCRDAAFMNLRRYLNQ-------------------------NPAVAMKDIPDKELDK-A 339
+V +DA +R+ + ++ DI EL +
Sbjct: 226 VVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPD 285
Query: 340 IVQADFDEAVRNCPKTVRPEDAEKFTDWIK 369
+ DF +A+++ TV +D K + +
Sbjct: 286 LTIKDFLKAIKSTRPTVNEDDLLKQEQFTR 315
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 362 bits (931), Expect = e-125
Identities = 123/332 (37%), Positives = 175/332 (52%), Gaps = 51/332 (15%)
Query: 72 VLKAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTML 131
++ NVKW+D+AGL+ AK+ L EA++LP P F R PW+G+LL GPPGTGK+ L
Sbjct: 2 IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYL 61
Query: 132 AKAAATETK-SNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHR 190
AKA ATE S FF+I+SS L SKW G+SEKL++ LF LA+E PSI+F DEIDS+C R
Sbjct: 62 AKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR 121
Query: 191 STS-TDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRRRLEKRIYV 249
S + ++ RR+K+E L QM G+ N +L+L ATN PW LD A RRR EKRIY+
Sbjct: 122 SENESEAARRIKTEFLVQMQGVGV-----DNDGILVLGATNIPWVLDSAIRRRFEKRIYI 176
Query: 250 PIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADITIVCR 309
P+P+ R ++ + L + + + L + +GYS ADI+I+ R
Sbjct: 177 PLPEPHARAAMFKLHLGTTQNSLT------------EADFRELGRKTDGYSGADISIIVR 224
Query: 310 DAAFMNLRRYLNQ-------------------------------NPAVAMKDIP-DKELD 337
DA +R+ + + D+P DK L+
Sbjct: 225 DALMQPVRKVQSATHFKKVRGPSRADPNHLVDDLLTPCSPGDPGAIEMTWMDVPGDKLLE 284
Query: 338 KAIVQADFDEAVRNCPKTVRPEDAEKFTDWIK 369
+ +D ++ N TV D K + +
Sbjct: 285 PVVSMSDMLRSLSNTKPTVNEHDLLKLKKFTE 316
>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 = 360 bits (926), Expect = e-124
Identities = 123/358 (34%), Positives = 187/358 (52%), Gaps = 44/358 (12%)
Query: 39 NQDKPVNEMYEAILKKLKLDPEEKKLARNILSEVLKAETNVKWADIAGLDDAKDLLYEAI 98
+ N+ + + KKL + S +L + NVKW D+AGL+ AK+ L EA+
Sbjct: 8 SGSNGGNKKISQEEGEDNGGEDNKKLRGALSSAILSEKPNVKWEDVAGLEGAKEALKEAV 67
Query: 99 VLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGD 158
+LP P F R+P G+LL GPPGTGK+ LAKA ATE S FF+++SS L SKW G+
Sbjct: 68 ILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGE 127
Query: 159 SEKLIRLLFLLAKELAPSIVFFDEIDSMCSHRSTS-TDVTRRMKSELLCQMDGLASVSNE 217
SEKL++ LF +A+E PSI+F D++D++ R ++ +RR+K+ELL QM+G+ +
Sbjct: 128 SEKLVKQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGN---- 183
Query: 218 DPNKSVLILAATNFPWDLDEAFRRRLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIE 277
++ VL+L ATN PW LD A RRR E+RIY+P+PD A R ++ I + +
Sbjct: 184 -DSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTP-------- 234
Query: 278 VLNVKVDKDVNIEVLAERLEGYSSADITIVCRDAAFMNLRRYLNQ--------------- 322
V + L EGYS +DI +V +DA +R+ +
Sbjct: 235 ----SVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRK 290
Query: 323 ----------NPAVAMKDIPDKELDK-AIVQADFDEAVRNCPKTVRPEDAEKFTDWIK 369
++ DI EL + + DF +A+++ TV +D K + +
Sbjct: 291 LTPSSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTVNEDDLLKQEQFTR 348
>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 = 354 bits (909), Expect = e-120
Identities = 128/346 (36%), Positives = 185/346 (53%), Gaps = 51/346 (14%)
Query: 58 DPEEKKLARNILSEVLKAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKG 117
DPE+KKL + ++ NVKW+D+AGL+ AK+ L EA++LP P F R PW+G
Sbjct: 110 DPEKKKLQNQLQGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRG 169
Query: 118 VLLVGPPGTGKTMLAKAAATETK-SNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPS 176
+LL GPPGTGK+ LAKA ATE S FF+I+SS L SKW G+SEKL++ LF LA+E PS
Sbjct: 170 ILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPS 229
Query: 177 IVFFDEIDSMCSHRSTS-TDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDL 235
I+F DEIDS+C RS + ++ RR+K+E L QM G+ N +L+L ATN PW L
Sbjct: 230 IIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV-----DNDGILVLGATNIPWVL 284
Query: 236 DEAFRRRLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAER 295
D A RRR EKRIY+P+P+ R ++ + L + + + + + L +
Sbjct: 285 DSAIRRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLT------------EADFQELGRK 332
Query: 296 LEGYSSADITIVCRDAAFMNLRRYLNQ-------------------------------NP 324
+GYS ADI+I+ RDA +R+ +
Sbjct: 333 TDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPNCIVNDLLTPCSPGDPGAI 392
Query: 325 AVAMKDIP-DKELDKAIVQADFDEAVRNCPKTVRPEDAEKFTDWIK 369
+ D+P DK L+ + D ++ + TV +D K + +
Sbjct: 393 EMTWMDVPGDKLLEPVVSMWDMLRSLSSTKPTVNEQDLLKLKKFTE 438
>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 = 265 bits (679), Expect = 2e-87
Identities = 101/305 (33%), Positives = 159/305 (52%), Gaps = 34/305 (11%)
Query: 78 NVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKL-RRPWKGVLLVGPPGTGKTMLAKAAA 136
V W DI GL+D K L E + P P F K P KGVL GPPG GKT+LAKA A
Sbjct: 11 QVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIA 70
Query: 137 TETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHR----ST 192
E ++NF +I L + W+G+SE +R +F A++ AP ++FFDE+DS+ R
Sbjct: 71 NECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGD 130
Query: 193 STDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RLEKRIYVP 250
R+ +++L +MDG+ K+V I+ ATN P +D A R RL++ IY+P
Sbjct: 131 GGGAADRVINQILTEMDGM------STKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIP 184
Query: 251 IPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADITIVCRD 310
+PD+ +RV++L L+ V KDV++E LA+ G+S AD+T +C+
Sbjct: 185 LPDEKSRVAILKANLR-------------KSPVAKDVDLEFLAKMTNGFSGADLTEICQR 231
Query: 311 AAFMNLRRYLN--------QNPAVAMKDIPDKELDKAIVQADFDEAVRNCPKTVRPEDAE 362
A + +R + + + ++ + + I + F+EA+R ++V D
Sbjct: 232 ACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDIR 291
Query: 363 KFTDW 367
K+ +
Sbjct: 292 KYEMF 296
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 258 bits (661), Expect = 4e-85
Identities = 96/290 (33%), Positives = 156/290 (53%), Gaps = 28/290 (9%)
Query: 78 NVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKL-RRPWKGVLLVGPPGTGKTMLAKAAA 136
NV WADI L+D ++ L AI+ P P F L GVLL GPPG GKT+LAKA A
Sbjct: 6 NVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVA 65
Query: 137 TETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHR-STSTD 195
E+ NF ++ L + + G+SE+ +R +F AK AP ++FFDE+D++C R T
Sbjct: 66 NESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETG 125
Query: 196 VTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RLEKRIYVPIPD 253
+ R+ ++LL +MDGL + + V I+AATN P +D A R RL+K ++V +P
Sbjct: 126 ASVRVVNQLLTEMDGL------EARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPP 179
Query: 254 QATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAE--RLEGYSSADITIVCRDA 311
A R+++L +N +D DVN+E +A R + Y+ AD++ + R+A
Sbjct: 180 PADRLAILKTITKNGT----------KPPLDADVNLEAIAGDLRCDCYTGADLSALVREA 229
Query: 312 AFMNLRRYLNQNPAVAMKDIPDKELDKAIVQADFDEAVRNCPKTVRPEDA 361
+ LR+ + + + +++ + + F+EA + ++ +D
Sbjct: 230 SICALRQEMAR------QKSGNEKGELKVSHKHFEEAFKKVRSSISKKDQ 273
>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 = 270 bits (691), Expect = 7e-84
Identities = 103/314 (32%), Positives = 162/314 (51%), Gaps = 34/314 (10%)
Query: 69 LSEVLKAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKL-RRPWKGVLLVGPPGTG 127
L E + V W DI GL+D K L E + P P F K P KGVL GPPG G
Sbjct: 464 LRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCG 523
Query: 128 KTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMC 187
KT+LAKA A E ++NF +I L + W+G+SE +R +F A++ AP ++FFDE+DS+
Sbjct: 524 KTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIA 583
Query: 188 SHR----STSTDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR-- 241
R R+ +++L +MDG+ K+V I+ ATN P +D A R
Sbjct: 584 KARGGNIGDGGGAADRVINQILTEMDGM------STKKNVFIIGATNRPDIIDPAILRPG 637
Query: 242 RLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSS 301
RL++ IY+P+PD+ +RV++L L+ V KDV++E LA+ G+S
Sbjct: 638 RLDQLIYIPLPDEKSRVAILKANLR-------------KSPVAKDVDLEFLAKMTNGFSG 684
Query: 302 ADITIVCRDAAFMNLRRYLN--------QNPAVAMKDIPDKELDKAIVQADFDEAVRNCP 353
AD+T +C+ A + +R + + + ++ + + I + F+EA+R
Sbjct: 685 ADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFAR 744
Query: 354 KTVRPEDAEKFTDW 367
++V D K+ +
Sbjct: 745 RSVSDNDIRKYEMF 758
Score = 223 bits (569), Expect = 3e-66
Identities = 91/285 (31%), Positives = 145/285 (50%), Gaps = 27/285 (9%)
Query: 78 NVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKL-RRPWKGVLLVGPPGTGKTMLAKAAA 136
V + D+ G + E + LP PA F + +P +G+LL GPPGTGKT++A+A A
Sbjct: 200 EVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA 259
Query: 137 TETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHR-STSTD 195
ET + FF I + SK G+SE +R F A++ AP+I+F DE+D++ R T +
Sbjct: 260 NETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGE 319
Query: 196 VTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RLEKRIYVPIPD 253
V RR+ S+LL MDGL ++ V+++AATN P +D A RR R ++ + + IPD
Sbjct: 320 VERRIVSQLLTLMDGLKQRAH------VIVMAATNRPNSIDPALRRFGRFDREVDIGIPD 373
Query: 254 QATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADITIVCRDAAF 313
R+ +L I + N+K+ DV++E +A G+ AD+ +C +AA
Sbjct: 374 ATGRLEILQIHTK-------------NMKLADDVDLEQVANETHGHVGADLAALCSEAAL 420
Query: 314 MNLRRYLNQNPAVAMKDIPDKELDKAIVQADFDEAVRNCPKTVRP 358
+R+ ++ + A+ DF A+ P
Sbjct: 421 QAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWAL----SQSNP 461
>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 = 240 bits (613), Expect = 2e-75
Identities = 93/293 (31%), Positives = 150/293 (51%), Gaps = 29/293 (9%)
Query: 71 EVLKAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLR-RPWKGVLLVGPPGTGKT 129
+ ++ V + DI G + E + LP PA F + +P +G+LL GPPGTGKT
Sbjct: 193 DEEESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKT 252
Query: 130 MLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSH 189
++A+A A ET + FF I + SK G+SE +R F A++ AP+I+F DE+D++
Sbjct: 253 LIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPK 312
Query: 190 RS-TSTDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RLEKR 246
R T +V RR+ S+LL MDGL V+++AATN P +D A RR R ++
Sbjct: 313 REKTHGEVERRIVSQLLTLMDGL------KQRAHVIVMAATNRPNSIDPALRRFGRFDRE 366
Query: 247 IYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADITI 306
+ + IPD R+ +L I + N+K+ DV++E +A G+ AD+
Sbjct: 367 VDIGIPDATGRLEILQIHTK-------------NMKLADDVDLEQVANETHGHVGADLAA 413
Query: 307 VCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAIV-QADFDEAVRNCPKTVRP 358
+C +AA +R+ ++ + + I + ++ V DF A+ P
Sbjct: 414 LCSEAALQAIRKKMDLI-DLEDETIDAEVMNSLAVTMDDFRWAL----SQSNP 461
Score = 30.1 bits (68), Expect = 1.3
Identities = 5/15 (33%), Positives = 5/15 (33%)
Query: 78 NVKWADIAGLDDAKD 92
V W DI G
Sbjct: 473 QVTWEDIGGRSHHHH 487
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 233 bits (596), Expect = 4e-75
Identities = 98/292 (33%), Positives = 145/292 (49%), Gaps = 43/292 (14%)
Query: 78 NVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLR-RPWKGVLLVGPPGTGKTMLAKAAA 136
NV++ DI GL+ + E + LP P F+K+ P KG+LL GPPGTGKT+LAKA A
Sbjct: 13 NVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVA 72
Query: 137 TETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHR---STS 193
TET + F + S L K+ G+ L++ +F LAKE APSI+F DEID++ + R T
Sbjct: 73 TETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTG 132
Query: 194 TDV-TRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RLEKRIYVP 250
D +R +LL +MDG D V I+ ATN P LD A R R ++ I VP
Sbjct: 133 GDREVQRTLMQLLAEMDGF------DARGDVKIIGATNRPDILDPAILRPGRFDRIIEVP 186
Query: 251 IPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADITIVCRD 310
PD+ R+ +L I + + + +DVN+E +A+ EG A++ +C +
Sbjct: 187 APDEKGRLEILKIHTR-------------KMNLAEDVNLEEIAKMTEGCVGAELKAICTE 233
Query: 311 AAFMNLRRYLNQNPAVAMKDIPDKELDKAIVQADFDEAVRNCPKTVRPEDAE 362
A +R + + DF +AV + + + E
Sbjct: 234 AGMNAIRELRDY-----------------VTMDDFRKAVEKIMEKKKVKVKE 268
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 171 bits (435), Expect = 5e-51
Identities = 47/283 (16%), Positives = 95/283 (33%), Gaps = 42/283 (14%)
Query: 83 DIAGLDDAKDLLYEAIVLPSIIPAYFDKLR-RPWKGVLLVGPPGTGKTMLAKAAATETKS 141
+ G A + + +V + + + + + G G GK+ + +
Sbjct: 5 KLDGFYIAPAFMDKLVVHIT--KNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGI 62
Query: 142 NFFNITSSTLTSKWYGDSEKLIRLLFLLAKEL----APSIVFFDEIDSMCSHRSTSTD-- 195
N +++ L S G+ KLIR + A E+ +F +++D+ +T
Sbjct: 63 NPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYT 122
Query: 196 VTRRMKSELL---------CQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RLE 244
V +M + L Q+ G+ N+ N V I+ N L R R+E
Sbjct: 123 VNNQMVNATLMNIADNPTNVQLPGM---YNKQENARVPIIVTGNDFSTLYAPLIRDGRME 179
Query: 245 KRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADI 304
K + P + R+ + T + +V E + + ++ + I
Sbjct: 180 KFYWAPTRED--RIGVCTGIFR-----------------TDNVPAEDVVKIVDNFPGQSI 220
Query: 305 TIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAIVQADFDE 347
A + ++ I DK L+ F++
Sbjct: 221 DFFGALRARVYDDEVRKWVSGTGIEKIGDKLLNSFDGPPTFEQ 263
>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 = 157 bits (400), Expect = 3e-46
Identities = 83/274 (30%), Positives = 132/274 (48%), Gaps = 36/274 (13%)
Query: 78 NVKWADIAGLDDAKDLLYEAIV--LPSIIPAYFDKL--RRPWKGVLLVGPPGTGKTMLAK 133
V + D+AG+ +AK + E V L S P F +L + P KG LL+GPPG GKT+LAK
Sbjct: 2 GVSFKDVAGMHEAKLEVRE-FVDYLKS--PERFLQLGAKVP-KGALLLGPPGCGKTLLAK 57
Query: 134 AAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHRST- 192
A ATE + F + + G +R LF A+ AP IV+ DEID++ RST
Sbjct: 58 AVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTT 117
Query: 193 ----STDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RLEKR 246
S + ++LL +MDG+ V++LA+TN LD A R RL++
Sbjct: 118 MSGFSNTEEEQTLNQLLVEMDGM------GTTDHVIVLASTNRADILDGALMRPGRLDRH 171
Query: 247 IYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADITI 306
+++ +P R + L+++K+ + + LAE G+S ADI
Sbjct: 172 VFIDLPTLQERREIFEQHLKSLKLTQSS-----------TFYSQRLAELTPGFSGADIAN 220
Query: 307 VCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAI 340
+C +AA R + +V + + +++ +
Sbjct: 221 ICNEAALHAARE---GHTSVHTLNF-EYAVERVL 250
>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 = 153 bits (388), Expect = 2e-44
Identities = 91/276 (32%), Positives = 142/276 (51%), Gaps = 33/276 (11%)
Query: 74 KAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKL--RRPWKGVLLVGPPGTGKTML 131
+ NV++ D+AG ++AK+ + E IV P + L + P KGVLLVGPPGTGKT+L
Sbjct: 3 AEKPNVRFKDMAGNEEAKEEVVE-IVDFLKYPERYANLGAKIP-KGVLLVGPPGTGKTLL 60
Query: 132 AKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHRS 191
AKA A E FF++ S+ + G +R LF AK+ APSI+F DEID++ R+
Sbjct: 61 AKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRA 120
Query: 192 TS-----TDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RLE 244
D + ++LL +MDG N V++LAATN P LD A R R +
Sbjct: 121 AGGVVSGNDEREQTLNQLLAEMDGF-----GSENAPVIVLAATNRPEILDPALMRPGRFD 175
Query: 245 KRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADI 304
+++ V PD RV +L + ++ VK+ DVN++ +A+ G + AD+
Sbjct: 176 RQVLVDKPDFNGRVEILKVHIK-------------GVKLANDVNLQEVAKLTAGLAGADL 222
Query: 305 TIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAI 340
+ +AA + R V + + + +++ I
Sbjct: 223 ANIINEAALLAGRN---NQKEVRQQHL-KEAVERGI 254
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 151 bits (383), Expect = 8e-44
Identities = 89/276 (32%), Positives = 143/276 (51%), Gaps = 35/276 (12%)
Query: 74 KAETNVKWADIAGLDDAKDLLYEAI-VLPSIIPAYFDKL--RRPWKGVLLVGPPGTGKTM 130
+ + +AD+AG D+AK+ + E + L P+ F KL + P KGVL+VGPPGTGKT+
Sbjct: 4 EDQIKTTFADVAGCDEAKEEVAELVEYLRE--PSRFQKLGGKIP-KGVLMVGPPGTGKTL 60
Query: 131 LAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHR 190
LAKA A E K FF I+ S + G +R +F AK+ AP I+F DEID++ R
Sbjct: 61 LAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQR 120
Query: 191 STST----DVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RLE 244
D + +++L +MDG + N+ ++++AATN P LD A R R +
Sbjct: 121 GAGLGGGHDEREQTLNQMLVEMDGF------EGNEGIIVIAATNRPDVLDPALLRPGRFD 174
Query: 245 KRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADI 304
+++ V +PD R +L + ++ V + D++ ++A G+S AD+
Sbjct: 175 RQVVVGLPDVRGREQILKVHMR-------------RVPLAPDIDAAIIARGTPGFSGADL 221
Query: 305 TIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAI 340
+ +AA R N+ V+M + +K DK +
Sbjct: 222 ANLVNEAALFAARG--NKR-VVSMVEF-EKAKDKIM 253
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 151 bits (384), Expect = 9e-44
Identities = 89/286 (31%), Positives = 136/286 (47%), Gaps = 46/286 (16%)
Query: 72 VLKAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKL--RRPWKGVLLVGPPGTGKT 129
VL V + D+AG ++AK+ L E IV P+ F ++ R P KGVLLVGPPG GKT
Sbjct: 30 VLTEAPKVTFKDVAGAEEAKEELKE-IVEFLKNPSRFHEMGARIP-KGVLLVGPPGVGKT 87
Query: 130 MLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSH 189
LA+A A E + F + S + G +R LF AK AP IVF DEID++
Sbjct: 88 HLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRK 147
Query: 190 RSTST----DVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RL 243
R + D + ++LL +MDG + + +++++AATN P LD A R R
Sbjct: 148 RGSGVGGGNDEREQTLNQLLVEMDGF------EKDTAIVVMAATNRPDILDPALLRPGRF 201
Query: 244 EKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSAD 303
+++I + PD R +L I + + +DV++ +LA+R G+ AD
Sbjct: 202 DRQIAIDAPDVKGREQILRIHAR-------------GKPLAEDVDLALLAKRTPGFVGAD 248
Query: 304 ITIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAIVQADFDEAV 349
+ + +AA + R + + I D +EA
Sbjct: 249 LENLLNEAALLAARE--GR---------------RKITMKDLEEAA 277
>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 = 150 bits (380), Expect = 2e-43
Identities = 89/286 (31%), Positives = 136/286 (47%), Gaps = 46/286 (16%)
Query: 72 VLKAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKL--RRPWKGVLLVGPPGTGKT 129
VL V + D+AG ++AK+ L E IV P+ F ++ R P KGVLLVGPPG GKT
Sbjct: 6 VLTEAPKVTFKDVAGAEEAKEELKE-IVEFLKNPSRFHEMGARIP-KGVLLVGPPGVGKT 63
Query: 130 MLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSH 189
LA+A A E + F + S + G +R LF AK AP IVF DEID++
Sbjct: 64 HLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRK 123
Query: 190 RSTST----DVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RL 243
R + D + ++LL +MDG + + +++++AATN P LD A R R
Sbjct: 124 RGSGVGGGNDEREQTLNQLLVEMDGF------EKDTAIVVMAATNRPDILDPALLRPGRF 177
Query: 244 EKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSAD 303
+++I + PD R +L I + + +DV++ +LA+R G+ AD
Sbjct: 178 DRQIAIDAPDVKGREQILRIHAR-------------GKPLAEDVDLALLAKRTPGFVGAD 224
Query: 304 ITIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAIVQADFDEAV 349
+ + +AA + R + + I D +EA
Sbjct: 225 LENLLNEAALLAARE--------------GR---RKITMKDLEEAA 253
>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 = 139 bits (351), Expect = 5e-39
Identities = 47/266 (17%), Positives = 86/266 (32%), Gaps = 30/266 (11%)
Query: 78 NVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAKAAAT 137
+ I D + + L D R P VLL GPP +GKT LA A
Sbjct: 29 SYIMNGIIKWGDPVTRVLDDGELLVQQTKNSD--RTPLVSVLLEGPPHSGKTALAAKIAE 86
Query: 138 ETKSNFFNITSSTLTSKWYGDSE-KLIRLLFLLAKELAPSIVFFDEIDSMCSHRSTSTDV 196
E+ F I S + ++ + ++ +F A + S V D+I+ + +
Sbjct: 87 ESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRF 146
Query: 197 TRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RLEKRIYVPIPDQ 254
+ + LL + + +LI+ T+ L I+V P+
Sbjct: 147 SNLVLQALLVLLKKA-----PPQGRKLLIIGTTSRKDVLQ-EMEMLNAFSTTIHV--PNI 198
Query: 255 ATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYS---SADITIVCRDA 311
AT LL D +A++++G ++ +
Sbjct: 199 ATGEQLLEALELLGNFK--------------DKERTTIAQQVKGKKVWIGIKKLLMLIEM 244
Query: 312 AFMNLRRYLNQNPAVAMKDIPDKELD 337
+ Y + +++ LD
Sbjct: 245 SLQMDPEYRVRKFLALLREEGASPLD 270
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 139 bits (352), Expect = 3e-37
Identities = 90/279 (32%), Positives = 142/279 (50%), Gaps = 37/279 (13%)
Query: 72 VLKAETNVKWADIAGLDDAKDLLYEAIV--LPSIIPAYFDKL--RRPWKGVLLVGPPGTG 127
VL V + D+AG ++AK+ L E IV L + P+ F ++ R P KGVLLVGPPG G
Sbjct: 21 VLTEAPKVTFKDVAGAEEAKEELKE-IVEFLKN--PSRFHEMGARIP-KGVLLVGPPGVG 76
Query: 128 KTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMC 187
KT LA+A A E + F + S + G +R LF AK AP IVF DEID++
Sbjct: 77 KTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVG 136
Query: 188 SHRSTST----DVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR-- 241
R + D + ++LL +MDG + + +++++AATN P LD A R
Sbjct: 137 RKRGSGVGGGNDEREQTLNQLLVEMDGF------EKDTAIVVMAATNRPDILDPALLRPG 190
Query: 242 RLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSS 301
R +++I + PD R +L I + + +DV++ +LA+R G+
Sbjct: 191 RFDRQIAIDAPDVKGREQILRIHAR-------------GKPLAEDVDLALLAKRTPGFVG 237
Query: 302 ADITIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAI 340
AD+ + +AA + R + + MKD+ ++ D+ +
Sbjct: 238 ADLENLLNEAALLAARE--GRR-KITMKDL-EEAADRVM 272
>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 = 138 bits (350), Expect = 5e-37
Identities = 94/276 (34%), Positives = 144/276 (52%), Gaps = 37/276 (13%)
Query: 75 AETNVKWADIAGLDDAKDLLYEAIV--LPSIIPAYFDKL--RRPWKGVLLVGPPGTGKTM 130
V + D+ G ++A + L E +V L P+ F+++ R P KG+LLVGPPGTGKT+
Sbjct: 9 GNKRVTFKDVGGAEEAIEELKE-VVEFLKD--PSKFNRIGARMP-KGILLVGPPGTGKTL 64
Query: 131 LAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHR 190
LA+A A E FF+I+ S + G +R LF AK AP IVF DEID++ HR
Sbjct: 65 LARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHR 124
Query: 191 STST----DVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRR--RLE 244
D + ++LL +MDG D + ++++AATN P LD A R R +
Sbjct: 125 GAGLGGGHDEREQTLNQLLVEMDGF------DSKEGIIVMAATNRPDILDPALLRPGRFD 178
Query: 245 KRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADI 304
K+I V PD R +L I + N + +DVN+E++A+R G+ AD+
Sbjct: 179 KKIVVDPPDMLGRKKILEIHTR-------------NKPLAEDVNLEIIAKRTPGFVGADL 225
Query: 305 TIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAI 340
+ +AA + R ++ + MKD ++ +D+ I
Sbjct: 226 ENLVNEAALLAARE--GRD-KITMKDF-EEAIDRVI 257
>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 = 79.9 bits (196), Expect = 2e-16
Identities = 61/369 (16%), Positives = 119/369 (32%), Gaps = 83/369 (22%)
Query: 22 LINNLTPSTPLLNIIQLNQDKPVNEMYEAILKKLKLDPEEKKLARNILSEVLKAETNVKW 81
+I + + L + K + + + + L+++ L +K E
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRIN-------YKFLMSPIKTEQRQPS 106
Query: 82 ADIAGLDDAKDLLYEAIVLPSIIPAY-------FDKLR------RPWKGVLLVGPPGTGK 128
+ +D LY + Y + KLR RP K VL+ G G+GK
Sbjct: 107 MMTRMYIEQRDRLYND---NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGK 163
Query: 129 TMLAKAAA--TETKSNF-FNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDS 185
T +A + + F I L K E ++ +L L ++ P+ + D
Sbjct: 164 TWVALDVCLSYKVQCKMDFKI--FWLNLKNCNSPETVLEMLQKLLYQIDPN--WTSRSDH 219
Query: 186 MCSHRSTSTDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRRRLEK 245
+ + + LL +L+L + AF L
Sbjct: 220 SSNIKLRIHSIQAE-LRRLLKSKPY---------ENCLLVLLNVQNAKAWN-AF--NLSC 266
Query: 246 RIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADIT 305
+I + TR K V + L+ ++++ + L +
Sbjct: 267 KILL-----TTR-------------FKQV-TDFLSAATTTHISLDHHSMTLTPDEVKSL- 306
Query: 306 IVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKA--IVQADFDEAVRNCPKT---VRPED 360
L +YL+ P +D+P +E+ + E++R+ T + +
Sbjct: 307 ----------LLKYLDCRP----QDLP-REVLTTNPRRLSIIAESIRDGLATWDNWKHVN 351
Query: 361 AEKFTDWIK 369
+K T I+
Sbjct: 352 CDKLTTIIE 360
Score = 49.9 bits (118), Expect = 1e-06
Identities = 65/364 (17%), Positives = 121/364 (33%), Gaps = 94/364 (25%)
Query: 35 IIQLNQDKPV-NEMYEAILKKLKLDPEEKKLARNILSEVLKAETNVKWADIAGLDDAKDL 93
I+ + K V + + A + LD L + + +L +K+ D +DL
Sbjct: 268 ILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL-----LKYLDC----RPQDL 318
Query: 94 LYEAI-VLP---SIIPAYF-DKLRRPWKGVLLVGPPGTGKTM---LAKAAATETKSNF-- 143
E + P SII D L W V + L E + F
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLAT-WDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR 377
Query: 144 ---F----NITSSTLTSKWYGDSEKLIRLLFLLAKELAP-SIVFFDEIDSMCS-HRSTST 194
F +I + L+ W+ + + ++ +L S+V +S S
Sbjct: 378 LSVFPPSAHIPTILLSLIWFDVIKSDVM---VVVNKLHKYSLVEKQPKESTISIP----- 429
Query: 195 DVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFP--WDLDEAFRRRLEKRIYVPIP 252
+ EL +++ ++ ++S I+ N P +D D+ L++ Y I
Sbjct: 430 SIYL----ELKVKLENEYAL-----HRS--IVDHYNIPKTFDSDDLIPPYLDQYFYSHIG 478
Query: 253 ------DQATRVSLLTI------FLQNVKVDKD-----VNIEVLNVKVDKDVNIEVLAER 295
+ R++L + FL+ K+ D + +LN
Sbjct: 479 HHLKNIEHPERMTLFRMVFLDFRFLEQ-KIRHDSTAWNASGSILNTLQQ----------- 526
Query: 296 LEGYSSADITIVCRDAAF-MNLRRYLNQNPAVAMKDIPDKELDKAIVQ--------ADFD 346
L+ Y I D + + L+ P + I K D +++ A F+
Sbjct: 527 LKFYKP---YICDNDPKYERLVNAILDFLPKIEENLICSKYTD--LLRIALMAEDEAIFE 581
Query: 347 EAVR 350
EA +
Sbjct: 582 EAHK 585
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 63.2 bits (153), Expect = 2e-11
Identities = 48/316 (15%), Positives = 87/316 (27%), Gaps = 67/316 (21%)
Query: 59 PEEKKLARNILSEVLKAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRR----- 113
E A+ +L E+ + ++ GL KD + E L ++ R+
Sbjct: 16 EYEGSGAKEVLEELDR--------ELIGLKPVKDRIRETAAL-----LLVERARQKLGLA 62
Query: 114 ---PWKGVLLVGPPGTGKTMLAKAAATET-------KSNFFNITSSTLTSKWYGDSEKLI 163
P + G PGTGKT +A A K + ++T L ++ G +
Sbjct: 63 HETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKT 122
Query: 164 RLLFLLAKELAPSIVFFDEIDSMCSHRSTSTDVTRRMKSELLCQMDGLASVSNEDPNKSV 223
+ + A ++F DE + + ++ L V + + V
Sbjct: 123 KEVLKRAM---GGVLFIDEAYYLYRPDNERDYGQE--------AIEILLQVMENNRDDLV 171
Query: 224 LILAATNFPWD----LDEAFRRRLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVL 279
+ILA + + FR R+ I P + L +
Sbjct: 172 VILAGYADRMENFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMT------ 225
Query: 280 NVKVDKDVNIEVLAERLEGYSS-------ADITIVCRDAAFMNLRRYLNQNPAVAMKDIP 332
L + + I A R +
Sbjct: 226 ------PEAETALRAYIGLRRNQPHFANARSIRNALDRARLRQANRLFTAS-----SGPL 274
Query: 333 DKELDKAIVQADFDEA 348
D I + D +
Sbjct: 275 DARALSTIAEEDIRAS 290
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 54.1 bits (131), Expect = 9e-10
Identities = 20/104 (19%), Positives = 39/104 (37%), Gaps = 30/104 (28%)
Query: 247 IYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADITI 306
+ P++ R+ +L I + + + + +N + +AE + G S A++
Sbjct: 6 HHHSHPNEEARLDILKIHSRKMNLTRGIN-------------LRKIAELMPGASGAEVKG 52
Query: 307 VCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAIVQADFDEAVR 350
VC +A LR + + Q DF+ AV
Sbjct: 53 VCTEAGMYALRE--------------RR---VHVTQEDFEMAVA 79
>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 = 58.1 bits (140), Expect = 2e-09
Identities = 61/368 (16%), Positives = 96/368 (26%), Gaps = 161/368 (43%)
Query: 29 STPLLNIIQLNQDKPVNEMYEAILKKLKLDPEEKKLARNILSEVLKAETNVKWADIAGLD 88
S PL+ +IQL Y K L P E L LK T
Sbjct: 237 SCPLIGVIQLAH-------YVVTAKLLGFTPGE-------LRSYLKGATGHS-------- 274
Query: 89 DAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAKAAATETKSNFFNITS 148
+ +V I A T++ +FF
Sbjct: 275 -------QGLVTAVAI------------------------------AETDSWESFFVS-- 295
Query: 149 STLTSKWYGDSEKLIRLLFLL---AKE------LAPSIVFFDEID-------SMCSHRST 192
K I +LF + E L PSI+ D ++ M S
Sbjct: 296 ----------VRKAITVLFFIGVRCYEAYPNTSLPPSIL-EDSLENNEGVPSPMLS---- 340
Query: 193 STDVTRRMKSELLCQMDGLASVSNE--DPNKSV---LILAATNF-----PWDLDEAFRRR 242
++ + ++ ++ N K V L+ A N P L
Sbjct: 341 ---ISNLTQEQVQDYVNKT----NSHLPAGKQVEISLVNGAKNLVVSGPPQSL-YGLNLT 392
Query: 243 LEKRIYVPIPDQATRV-----------SLLTIF-------LQNV--KVDKDVNIEVLNVK 282
L K DQ +R+ L + L ++KD+ ++
Sbjct: 393 LRKAKAPSGLDQ-SRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFN 451
Query: 283 VDKDVNIEVLAERLEGYSSADITIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKAIVQ 342
KD+ I V Y + D + +LR + + IV
Sbjct: 452 A-KDIQIPV-------YDT-------FDGS--DLRVL-------------SGSISERIVD 481
Query: 343 ADFDEAVR 350
V+
Sbjct: 482 CIIRLPVK 489
Score = 43.9 bits (103), Expect = 8e-05
Identities = 45/226 (19%), Positives = 77/226 (34%), Gaps = 77/226 (34%)
Query: 9 ARNQ--FPTHHLPGSLI-----NNLTPSTPLLNIIQLNQDKPVNEMYEAILKKLKLDPEE 61
R +P LP S++ NN +P+L+I L Q++ V + L P
Sbjct: 308 VRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQ-VQDYVNKTNSHL---PAG 363
Query: 62 KKLARNILSEVLK--AETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVL 119
K++ +S L A+ V ++G + L + L LR+
Sbjct: 364 KQVE---IS--LVNGAKNLV----VSG--PPQSL--YGLNL---------TLRK------ 395
Query: 120 LVGPPGTGKTMLAKAAATETKSNFFN----IT----SSTLTSKWYGDSEKLIRL------ 165
P G ++ + +E K F N + S L + LI
Sbjct: 396 AKAPSGLDQS---RIPFSERKLKFSNRFLPVASPFHSHLLV-----PASDLINKDLVKNN 447
Query: 166 LFLLAKELA-PSIVF--FDEIDSMCSHRSTSTDVTRRMKSELLCQM 208
+ AK++ P V+ FD D + R S ++ R +
Sbjct: 448 VSFNAKDIQIP--VYDTFDGSD-L---RVLSGSISER-----IVDC 482
Score = 39.3 bits (91), Expect = 0.002
Identities = 60/418 (14%), Positives = 121/418 (28%), Gaps = 143/418 (34%)
Query: 8 HA---RNQFPTHHLPGSLINNLTPSTPLLNIIQLNQDKPVNEMYEAILKKL--KLDPEEK 62
A + QF LP P ++ E+ L + ++P +
Sbjct: 29 IASQLQEQF-NKILP----------EPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKV 77
Query: 63 KLARNILSEVLKA-ETNV-KWADI----AGLDD--------AKDLL---YEAIVL----- 100
+L+ L E + DI A L K+L+ A ++
Sbjct: 78 GQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPF 137
Query: 101 ----PS---------------------IIPAYFDKLRRPWKGVLLVGPPGTGKTMLAKAA 135
S YF++LR ++ T ++
Sbjct: 138 DKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQ---------TYHVLVG--- 185
Query: 136 ATETKSNFFNITSSTL---------TSKWYGDSEKLIRLLFLLAKELAPSIVFFDEID-S 185
+ ++ TL K + ++ +L P + I S
Sbjct: 186 ------DLIKFSAETLSELIRTTLDAEKVFTQGLNILE--WLENPSNTPDKDYLLSIPIS 237
Query: 186 M-------CSHRSTSTDVTRRMKSELLCQMDGLASVSNEDPNKSVL---ILAATNFPWD- 234
+H + + EL + G S + ++ +A T+ W+
Sbjct: 238 CPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHS-----QGLVTAVAIAETD-SWES 291
Query: 235 LDEAFRRRLE------KRIYVPIPDQATRVSLLTIFLQN--------VKVDKDVNIEVLN 280
+ R+ + R Y P+ + S+L L+N + + ++ E +
Sbjct: 292 FFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI-SNLTQEQVQ 350
Query: 281 VKVDKDVNIEVLAER-----LEGYSSADITIVC---RD-AAF-MNLRRY-----LNQN 323
V+K N + A + L + A +V + + LR+ L+Q+
Sbjct: 351 DYVNK-TNSHLPAGKQVEISL--VNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQS 405
Score = 32.7 bits (74), Expect = 0.25
Identities = 48/315 (15%), Positives = 93/315 (29%), Gaps = 105/315 (33%)
Query: 63 KLARNILSEVLKAETNVKWADIAGLDDAKDLLYEA--IVLPSIIPAYFDKLRRPWKGVLL 120
K A+++ W + A + + + I+ + P +
Sbjct: 1640 KAAQDV------------W------NRADNHFKDTYGFSILDIV------INNPVNLTIH 1675
Query: 121 VGPPGTGK-------TMLAKA---AATETKSNFFNITSSTLTSKWYGDSEKLIRLLF--- 167
G GK M+ + +T+ F I + + + + L F
Sbjct: 1676 FGGEK-GKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQP 1734
Query: 168 -LLAKELAPSIVFFDEIDSMCSHRSTSTDVTRRMKSELLCQMD----G--------LASV 214
L E A +KS+ L D G LAS+
Sbjct: 1735 ALTLMEKA---------------------AFEDLKSKGLIPADATFAGHSLGEYAALASL 1773
Query: 215 SNEDPNKSVLILAATNFPWDLDEAFRR-RLEKRIYVPIPDQATRVSLLTIFLQNVKVDKD 273
++ V+ + + ++ F R + VP D+ R + I + +V
Sbjct: 1774 AD------VMSIESL-----VEVVFYRGMTMQVA-VP-RDELGRSNYGMIAINPGRVAAS 1820
Query: 274 VNIEVLNVKVDKDVNIEVLAERLEG------YSSADITIVC--RDAAFMNLRRYLNQNPA 325
+ E L V++ + +R Y+ + V A + LN
Sbjct: 1821 FSQEALQYVVER------VGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFI-- 1872
Query: 326 VAMKDIPDKELDKAI 340
++ I EL K++
Sbjct: 1873 -KLQKIDIIELQKSL 1886
>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 = 53.8 bits (129), Expect = 3e-08
Identities = 52/275 (18%), Positives = 97/275 (35%), Gaps = 36/275 (13%)
Query: 81 WADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAKAAATE-- 138
+ + G ++A++ +I + + VLL GPPGTGKT LA A A E
Sbjct: 36 ASGLVGQENAREAC-------GVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQELG 88
Query: 139 TKSNFFNITSSTLTSKWYGDSEKLIRLLF--LLAKELAPSIVFFDEIDSMCSHRSTS--- 193
+K F + S + S +E L+ + + V+ E+ + + +
Sbjct: 89 SKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIKETKEVYEGEVTELTPCETENPMG 148
Query: 194 -----------TDVTRRMKSELLCQMDGLASVSNE--DPNKSVLILAATNFPWDLDEAFR 240
T + +L S+ E + + I A +
Sbjct: 149 GYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKERVEAGDVIYIEANSGAVKRQGRCDT 208
Query: 241 RR----LEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERL 296
LE YVP+P V +Q+V + +++V N + +I + +L
Sbjct: 209 YATEFDLEAEEYVPLPK--GDVHKKKEIIQDVTLH---DLDVANARPQGGQDILSMMGQL 263
Query: 297 EGYSSADITIVCRDAAFMNLRRYLNQNPAVAMKDI 331
+IT R + +Y++Q A + +
Sbjct: 264 MKPKKTEITDKLRGEINKVVNKYIDQGIAELVPGV 298
>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 = 48.1 bits (115), Expect = 1e-07
Identities = 16/85 (18%), Positives = 31/85 (36%), Gaps = 17/85 (20%)
Query: 280 NVKVDKDVNIEVLAERLEGYSSADITIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKA 339
+ + + +++ L R + S A I + ++A +R +
Sbjct: 13 KMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVR-----------------KNRYV 55
Query: 340 IVQADFDEAVRNCPKTVRPEDAEKF 364
I+Q+D +EA KT D F
Sbjct: 56 ILQSDLEEAYATQVKTDNTVDKFDF 80
>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin,
S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber
suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B*
2dvw_B*
Length = 83
Score = 47.7 bits (114), Expect = 2e-07
Identities = 15/85 (17%), Positives = 36/85 (42%), Gaps = 21/85 (24%)
Query: 280 NVKVDKDVNIEVLAERLEGYSSADITIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKA 339
+ + ++V++E R + S ADI +C+++ + +R E
Sbjct: 16 KMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVR-----------------ENRYI 58
Query: 340 IVQADFDEAVRNCPKTVRPEDAEKF 364
++ DF++A + V +D ++
Sbjct: 59 VLAKDFEKAYKT----VIKKDEQEH 79
>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 = 46.3 bits (111), Expect = 3e-07
Identities = 21/101 (20%), Positives = 39/101 (38%), Gaps = 30/101 (29%)
Query: 250 PIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADITIVCR 309
P P++ R+ +L I + + + + +N + +AE + G S A++ VC
Sbjct: 1 PPPNEEARLDILKIHSRKMNLTRGIN-------------LRKIAELMPGASGAEVKGVCT 47
Query: 310 DAAFMNLRRYLNQNPAVAMKDIPDKELDKAIVQADFDEAVR 350
+A LR + + Q DF+ AV
Sbjct: 48 EAGMYALRE--------------RR---VHVTQEDFEMAVA 71
>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 = 50.3 bits (120), Expect = 6e-07
Identities = 32/174 (18%), Positives = 51/174 (29%), Gaps = 33/174 (18%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATETKSNFF--------------NITSSTLTSKWYGDSEK 161
+ +L GPPG GKT A A E + + L + K
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFK 137
Query: 162 LIRLLFLLAKELAPSIVFFDEIDSMCSHRSTSTDVTRRMKSELLCQMDGLASVSNEDPNK 221
L ++ DE+D M + D R +L
Sbjct: 138 HNEEAQNLNG--KHFVIIMDEVDGM-----SGGD--RGGVGQLA---------QFCRKTS 179
Query: 222 SVLILAATNFPWDLDEAFRRRLEKRIYVPIPDQATRVSLLTIFLQ-NVKVDKDV 274
+ LIL F R + + + L+TI ++ K+D +V
Sbjct: 180 TPLILICNERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKFKLDPNV 233
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 47.5 bits (114), Expect = 3e-06
Identities = 33/105 (31%), Positives = 43/105 (40%), Gaps = 34/105 (32%)
Query: 93 LLYEAI---VLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAKAAATETKSNFFNITSS 149
L AI L S+I L GPPGTGKT LA+ A ++ I S
Sbjct: 40 PLPRAIEAGHLHSMI---------------LWGPPGTGKTTLAEVIARYANADVERI--S 82
Query: 150 TLTSKWYGDSEKLIRLLFLLAKELA----PSIVFFDEIDSMCSHR 190
+TS G E IR A++ +I+F DE+ HR
Sbjct: 83 AVTS---GVKE--IREAIERARQNRNAGRRTILFVDEV-----HR 117
>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 = 46.3 bits (110), Expect = 7e-06
Identities = 18/55 (32%), Positives = 23/55 (41%), Gaps = 12/55 (21%)
Query: 82 ADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAKAAA 136
+ I G +D K L V P I GVL+ G GTGK+ +A A
Sbjct: 24 SAIVGQEDMKLALLLTAVDPGI------------GGVLVFGDRGTGKSTAVRALA 66
>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 = 41.8 bits (99), Expect = 2e-05
Identities = 12/71 (16%), Positives = 28/71 (39%), Gaps = 17/71 (23%)
Query: 280 NVKVDKDVNIEVLAERLEGYSSADITIVCRDAAFMNLRRYLNQNPAVAMKDIPDKELDKA 339
++ V++ + E+++ + A++ VC +A +R + K
Sbjct: 16 SMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRA--------------RR---KV 58
Query: 340 IVQADFDEAVR 350
+ DF +AV
Sbjct: 59 ATEKDFLKAVD 69
>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 = 41.5 bits (98), Expect = 2e-04
Identities = 27/92 (29%), Positives = 41/92 (44%), Gaps = 8/92 (8%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSE---KLIRLLFL--LA 170
K +L++GP G GKT +A+ A + F + ++ T Y E + L A
Sbjct: 51 KNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGA 110
Query: 171 KELAPS--IVFFDEIDSMCS-HRSTSTDVTRR 199
+ IVF DEID +C + DV+R
Sbjct: 111 IDAVEQNGIVFIDEIDKICKKGEYSGADVSRE 142
>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 = 41.0 bits (97), Expect = 4e-04
Identities = 29/74 (39%), Positives = 33/74 (44%), Gaps = 14/74 (18%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSI 177
+LL GPPG GKT LA A E N +TS K GD L +LA L
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVN-LRVTSGPAIEK-PGD------LAAILANSLEEGD 92
Query: 178 VFF-DEIDSMCSHR 190
+ F DEI HR
Sbjct: 93 ILFIDEI-----HR 101
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 39.3 bits (92), Expect = 0.001
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 118 VLLVGPPGTGKTMLAKA-AATETKSNFFNI 146
V L+GPPG K+++A+ + F
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAFEY 73
>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 = 37.4 bits (87), Expect = 0.003
Identities = 12/23 (52%), Positives = 13/23 (56%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATE 138
KG+ VG PG GKT LA A
Sbjct: 39 KGLTFVGSPGVGKTHLAVATLKA 61
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 38.1 bits (89), Expect = 0.004
Identities = 24/161 (14%), Positives = 51/161 (31%), Gaps = 19/161 (11%)
Query: 38 LNQDKPVNEMYEAILKKLKLDPEEKKLARNILSEVLKAETNVKWADIAGLDDAKDLLYEA 97
+ ++ +N EA+ + + E + E+ E + + G + A E
Sbjct: 1 MGDNEKIN--REALAPREYGESLELGIEFTTTEEIEVPEKLID--QVIGQEHAV----EV 52
Query: 98 IVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYG 157
I + + VLL+G PGTGK+ML +A A + +
Sbjct: 53 IKTAANQKRH----------VLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPE-DE 101
Query: 158 DSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHRSTSTDVTR 198
+ ++ + + + + + T
Sbjct: 102 NMPRIKTVPACQGRRIVEKYREKAKSQESVKSSNMRLKSTV 142
>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 = 37.2 bits (87), Expect = 0.007
Identities = 29/74 (39%), Positives = 37/74 (50%), Gaps = 15/74 (20%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSI 177
VLL GPPG GKT LA A+E ++N ++TS + K GD + +L L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTN-IHVTSGPVLVK-QGD---MAAIL----TSLERGD 104
Query: 178 VFF-DEIDSMCSHR 190
V F DEI HR
Sbjct: 105 VLFIDEI-----HR 113
>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 = 37.6 bits (87), Expect = 0.007
Identities = 14/69 (20%), Positives = 28/69 (40%), Gaps = 7/69 (10%)
Query: 89 DAKDLLYEAIVLP---SIIPAYF-DKLRRPWKGVLLVGPPGTGKTMLAKAAAT---ETKS 141
+ + +V+P + + ++L GPPG+GKTM + + +
Sbjct: 1274 ETHKVASPDVVIPTVDTTRHVDVLHAWLSEHRPLILCGPPGSGKTMTLTSTLRAFPDFEV 1333
Query: 142 NFFNITSST 150
N +S+T
Sbjct: 1334 VSLNFSSAT 1342
Score = 31.8 bits (72), Expect = 0.43
Identities = 19/75 (25%), Positives = 30/75 (40%), Gaps = 7/75 (9%)
Query: 111 LRRPWKGVLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDS---EKLIRLLF 167
R+P LL+G G GK++L++ A + + I + Y S + L LL
Sbjct: 1642 FRQPQGHALLIGVSGGGKSVLSRFVAWMNGLSIYTIK----VNNNYKSSDFDDDLRMLLK 1697
Query: 168 LLAKELAPSIVFFDE 182
+ FDE
Sbjct: 1698 RAGCKEEKICFIFDE 1712
Score = 27.9 bits (62), Expect = 6.6
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 4/22 (18%)
Query: 117 GVLLVGPPGTGKT----MLAKA 134
GV++VGP G GKT + +A
Sbjct: 908 GVMMVGPSGGGKTTSWEVYLEA 929
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 36.8 bits (86), Expect = 0.008
Identities = 24/74 (32%), Positives = 33/74 (44%), Gaps = 15/74 (20%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSI 177
+L GP G GKT LA + E +N T++ + K GD L +L L+
Sbjct: 58 ILFSGPAGLGKTTLANIISYEMSAN-IKTTAAPMIEK-SGD------LAAILT-NLSEGD 108
Query: 178 VFF-DEIDSMCSHR 190
+ F DEI HR
Sbjct: 109 ILFIDEI-----HR 117
>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 = 0.011
Identities = 34/194 (17%), Positives = 54/194 (27%), Gaps = 39/194 (20%)
Query: 119 LLVGPPGTGKTMLA----------KAAATETKSNFF-NITSSTLTSKWYGDSEKLIRLLF 167
L+ G PG+GKT+ K + F NI + + K +
Sbjct: 9 LITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKST 68
Query: 168 LLAKELAP------------SIVFFDEIDSMCSHRSTSTDVTRRMKSELLCQM--DGLAS 213
SIV DE + RS + + + + L G+
Sbjct: 69 DEQLSAHDMYEWIKKPENIGSIVIVDEAQDVWPARSAGSKIPENV--QWLNTHRHQGID- 125
Query: 214 VSNEDPNKSVLILAATNFPWDLDEAFRRRLEKRIYVPIPDQATRVSLLTIFLQNVKVDKD 273
I T P LD+ R + K ++ R L + V
Sbjct: 126 -----------IFVLTQGPKLLDQNLRTLVRKHYHIASNKMGMRTLLEWKICADDPVKMA 174
Query: 274 VNIEVLNVKVDKDV 287
+ +DK V
Sbjct: 175 SSAFSSIYTLDKKV 188
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 35.8 bits (83), Expect = 0.011
Identities = 12/31 (38%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 108 FDKLRRPWKGVLLVGPPGTGKTMLAKAAATE 138
++ ++ KG+ L G G GKT L A A E
Sbjct: 48 YEPGKKM-KGLYLHGSFGVGKTYLLAAIANE 77
>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 = 35.9 bits (82), Expect = 0.018
Identities = 24/193 (12%), Positives = 53/193 (27%), Gaps = 47/193 (24%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKS-----------NFFNITSSTLTSKWY---------- 156
L +G GTGKT ++K E + + +
Sbjct: 48 NLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKL 107
Query: 157 --------GDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHRSTSTDV--TRRMKSELLC 206
G + +I++ DE+D++ R + R + +
Sbjct: 108 TGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANI-- 165
Query: 207 QMDGLASVSNEDPNKSVLILAATNFPWDLDEAFRRRLEKRIYVPIPDQATRVSLLTIFLQ 266
+ +SN+ N ++ L + D +L+ + +
Sbjct: 166 ---SVIMISND-----------INVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAE 211
Query: 267 NVKVDKDVNIEVL 279
+ + E+L
Sbjct: 212 YGLIKGTYDDEIL 224
>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 = 35.9 bits (84), Expect = 0.019
Identities = 18/36 (50%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 110 KLRRPWKG-VL-LVGPPGTGKTMLAKAAATETKSNF 143
KL + KG +L L GPPG GKT LAK+ A F
Sbjct: 101 KLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRKF 136
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 35.6 bits (82), Expect = 0.019
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATE 138
KG+ L G G GK+ L A A E
Sbjct: 153 KGLYLYGDMGIGKSYLLAAMAHE 175
>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 = 34.9 bits (81), Expect = 0.024
Identities = 12/20 (60%), Positives = 13/20 (65%)
Query: 119 LLVGPPGTGKTMLAKAAATE 138
L GPPGTGKT A A A +
Sbjct: 42 LFSGPPGTGKTATAIALARD 61
>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 = 35.1 bits (81), Expect = 0.030
Identities = 24/121 (19%), Positives = 38/121 (31%), Gaps = 15/121 (12%)
Query: 29 STPLLNIIQLNQDKPVNEMYEAILKKLKLDPEEKKLARNILSE-----------VLKAET 77
S+P + P + + PE + A +L E + K
Sbjct: 9 SSPKIEERTYPPQIPAQQELGDFSAYQSVLPEPLRKAEKLLQETGIKESTKTNTLKKLLR 68
Query: 78 NVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGV-LLVGPPGTGK-TMLAKAA 135
A ++ L E + ++P+ +L G G GK T LAK A
Sbjct: 69 FSVEAGGLTEENVVGKLQEILC--DMLPSADKWQEPIHSKYIVLFGSTGAGKTTTLAKLA 126
Query: 136 A 136
A
Sbjct: 127 A 127
>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 = 35.0 bits (80), Expect = 0.036
Identities = 25/154 (16%), Positives = 52/154 (33%), Gaps = 42/154 (27%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFN------ITSSTLTSKW---------------- 155
+ + G GTGKT + K ++ F I + + + +
Sbjct: 48 IFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPF 107
Query: 156 --YGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHRSTSTDVTRRMKSELLCQMDGLAS 213
+E RL+ + + ++ DEID+ ++L + L+
Sbjct: 108 TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKY----------NDDILYK---LSR 154
Query: 214 VSNEDPNKSVLILAATNFPWDLDEAFRRRLEKRI 247
+++E + + TN D F L+ R+
Sbjct: 155 INSEVNKSKISFIGITN-----DVKFVDLLDPRV 183
>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 = 34.5 bits (80), Expect = 0.050
Identities = 30/89 (33%), Positives = 45/89 (50%), Gaps = 11/89 (12%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWY-G-DSEKLIRLLFLLAK---- 171
+LL+GP G+GKT++A+ A +++LT Y G D E ++ LL
Sbjct: 75 ILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENIL--TRLLQASDWN 132
Query: 172 -ELAPS-IVFFDEIDSMCSHRSTSTDVTR 198
+ A IVF DEID + S S + +TR
Sbjct: 133 VQKAQKGIVFIDEIDKI-SRLSENRSITR 160
>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 = 34.2 bits (79), Expect = 0.056
Identities = 12/20 (60%), Positives = 13/20 (65%)
Query: 119 LLVGPPGTGKTMLAKAAATE 138
L GPPGTGKT A A A +
Sbjct: 42 LFSGPPGTGKTATAIALARD 61
>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 = 34.1 bits (79), Expect = 0.060
Identities = 33/89 (37%), Positives = 48/89 (53%), Gaps = 11/89 (12%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWY-G-DSEKLIRLLFLLAK---- 171
+LL+GP G+GKT+LA+ A F ++TLT Y G D E +I LL K
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENII--QKLLQKCDYD 111
Query: 172 -ELAPS-IVFFDEIDSMCSHRSTSTDVTR 198
+ A IV+ D+ID + S +S + +TR
Sbjct: 112 VQKAQRGIVYIDQIDKI-SRKSDNPSITR 139
>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 = 34.4 bits (79), Expect = 0.061
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 10/74 (13%)
Query: 89 DAKDLLYEAIVLPSIIPAYFDKLRRPW----KGVLLVGPPGTGKTMLAKAAATETKS--- 141
+A +++ IV+P+I +K+ +G++L GPPG+GKTM+ A +
Sbjct: 1237 EAHEVMRPDIVIPTIDTIKHEKIFYDLLNSKRGIILCGPPGSGKTMIMNNALRNSSLYDV 1296
Query: 142 ---NFFNITSSTLT 152
NF T++
Sbjct: 1297 VGINFSKDTTTEHI 1310
Score = 33.3 bits (76), Expect = 0.16
Identities = 13/75 (17%), Positives = 28/75 (37%), Gaps = 7/75 (9%)
Query: 111 LRRPWKGVLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDS---EKLIRLLF 167
L++ ++L+G TGKT+L + A + S L + +
Sbjct: 1605 LKQVQGHMMLIGASRTGKTILTRFVAWLNGLKIVQPK----IHRHSNLSDFDMILKKAIS 1660
Query: 168 LLAKELAPSIVFFDE 182
+ + + + + DE
Sbjct: 1661 DCSLKESRTCLIIDE 1675
Score = 32.1 bits (73), Expect = 0.39
Identities = 8/22 (36%), Positives = 11/22 (50%), Gaps = 4/22 (18%)
Query: 117 GVLLVGPPGTGKT----MLAKA 134
++LVG G GKT + A
Sbjct: 925 ALILVGKAGCGKTATWKTVIDA 946
>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 = 33.9 bits (78), Expect = 0.075
Identities = 12/20 (60%), Positives = 12/20 (60%)
Query: 119 LLVGPPGTGKTMLAKAAATE 138
L GPPG GKT A A A E
Sbjct: 50 LFAGPPGVGKTTAALALARE 69
>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 = 34.0 bits (77), Expect = 0.076
Identities = 22/157 (14%), Positives = 44/157 (28%), Gaps = 39/157 (24%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSN----FFNITSSTLTSKW------------------ 155
L+G PGTGKT+ + K F I +
Sbjct: 47 ATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRG 106
Query: 156 YGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHRSTSTDVTRRMKSELLCQMDGLASVS 215
E L L+ L + + D+ + ++L L +
Sbjct: 107 LSRDEFLALLVEHLRERDLYMFLVLDDAF--------------NLAPDILSTFIRLGQEA 152
Query: 216 NEDPNKSVLILAATN---FPWDLDEAFRRRLEKRIYV 249
++ + ++ + +LD + R + K +
Sbjct: 153 DKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIR 189
>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 = 33.7 bits (78), Expect = 0.079
Identities = 9/26 (34%), Positives = 12/26 (46%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNF 143
+LL G PG KT+ A +F
Sbjct: 49 ILLEGVPGLAKTLSVNTLAKTMDLDF 74
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 32.8 bits (75), Expect = 0.091
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEK 161
+L +G PG+GK+ A+ + F+NI E+
Sbjct: 5 ILTIGCPGSGKSTWAREFIAKNP-GFYNINRDDYRQSIMAHEER 47
>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 = 33.1 bits (75), Expect = 0.093
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITS 148
+LL G PG+GK+ +A+A A + S
Sbjct: 12 LLLSGHPGSGKSTIAEALANLPGVPKVHFHS 42
>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase,
antibiotic resistance, phosphorylation, mononucleoti
binding fold; HET: ATP; 2.50A {Streptomyces venezuelae}
SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A*
1qhy_A*
Length = 178
Score = 32.4 bits (73), Expect = 0.11
Identities = 5/35 (14%), Positives = 13/35 (37%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLT 152
++L G GK+ + + + + +L
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLI 40
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL
helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 32.9 bits (74), Expect = 0.12
Identities = 10/33 (30%), Positives = 14/33 (42%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATETKSNFFNITS 148
+LL G G GKT + + E + N I
Sbjct: 33 IAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDG 65
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 32.7 bits (75), Expect = 0.12
Identities = 8/15 (53%), Positives = 11/15 (73%)
Query: 118 VLLVGPPGTGKTMLA 132
+ L G PGTGKT+ +
Sbjct: 26 IALTGEPGTGKTIFS 40
>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 = 32.2 bits (73), Expect = 0.16
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 118 VLLVGPPGTGKTMLAKAAATET 139
+++ G P TGKT L++A AT
Sbjct: 8 IIVTGHPATGKTTLSQALATGL 29
>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 = 32.0 bits (72), Expect = 0.16
Identities = 24/132 (18%), Positives = 39/132 (29%), Gaps = 26/132 (19%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSI 177
+L+ G PGTGKT +A+ A +L L +L
Sbjct: 13 ILITGTPGTGKTSMAEMIA-----------------------AELDGFQHLEVGKLVKEN 49
Query: 178 VFFDEIDSMCSHRSTSTDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLD- 236
F+ E D+ R+ + M + + + + + L
Sbjct: 50 HFYTEYDTELDTHIIEEKDEDRLLDFMEPIMVSRGNHVVDYHSSELFPERWFHMVVVLHT 109
Query: 237 --EAFRRRLEKR 246
E RL KR
Sbjct: 110 STEVLFERLTKR 121
>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 = 31.9 bits (72), Expect = 0.17
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNIT 147
+LL G PG GKT L K A+++ + N+
Sbjct: 14 ILLTGTPGVGKTTLGKELASKSGLKYINVG 43
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 32.4 bits (74), Expect = 0.19
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 118 VLLVGPPGTGKTMLA 132
VLL G PGTGKT+ +
Sbjct: 26 VLLSGGPGTGKTIFS 40
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 32.4 bits (73), Expect = 0.22
Identities = 17/121 (14%), Positives = 39/121 (32%), Gaps = 11/121 (9%)
Query: 109 DKLRRPWKG---VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRL 165
KL + LL+G GK+ L +A E + L
Sbjct: 22 RKLEESLENYPLTLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAER----GHITREEL 77
Query: 166 LFLLAKELAPSIVFFDEIDSMCSHRSTSTDVTRRMKSELLCQMDGLASVSNEDPNKSVLI 225
+ L ++P F + + + + + + E+ +++ L E+ + ++
Sbjct: 78 IKELQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLG----EELGEFIVA 133
Query: 226 L 226
Sbjct: 134 F 134
>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 = 32.4 bits (73), Expect = 0.23
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 1/44 (2%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEK 161
+L +G PG+GK+ A+ + F+NI E+
Sbjct: 5 ILTIGCPGSGKSTWAREFIAKNP-GFYNINRDDYRQSIMAHEER 47
>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 = 32.2 bits (73), Expect = 0.27
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 118 VLLVGPPGTGKTMLAKAAATE 138
+L G GTGKT+L
Sbjct: 284 ILATGATGTGKTLLVSRFVEN 304
Score = 32.2 bits (73), Expect = 0.30
Identities = 11/49 (22%), Positives = 18/49 (36%), Gaps = 17/49 (34%)
Query: 84 IAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLA 132
I G DD + + + + L+ G GTGKT+ +
Sbjct: 25 IEGFDD---ISHGGLPIGRS--------------TLVSGTSGTGKTLFS 56
>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 = 31.9 bits (72), Expect = 0.32
Identities = 36/238 (15%), Positives = 66/238 (27%), Gaps = 28/238 (11%)
Query: 88 DDAKDLLYEAIVL------PSIIPAYFDKLRRPWKGV------LLVGPPGTGKTMLAKAA 135
A + A V P + +D L+ + L GP +GKT LA A
Sbjct: 130 GSADIEEWMAGVAWLHCLLPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAAL 189
Query: 136 ATETKSNFFNITSSTLTSK-WYGDSEKLIRLLF------LLAKELAPSIVFFDEIDSMCS 188
N+ G + ++F PS + +D++
Sbjct: 190 LELCGGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSGQGINNLDNLRD 249
Query: 189 HRSTSTDVTRRMKSELLCQMDG--LASVSNEDPNKSVL---ILAATNFPW--DLDEAFRR 241
+ S V K NE L + +F L R
Sbjct: 250 YLDGSVKVNLEKKHLNKRTQIFPPGIVTMNEYSVPKTLQARFVKQIDFRPKDYLKHCLER 309
Query: 242 RLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVK--VDKDVNIEVLAERLE 297
I + +L + + + + ++ K +DK+ ++ V +
Sbjct: 310 SEFLLEKRIIQSGIALLLMLIWYRPVAEFAQSIQSRIVEWKERLDKEFSLSVYQKMKF 367
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 31.4 bits (71), Expect = 0.33
Identities = 10/15 (66%), Positives = 10/15 (66%)
Query: 118 VLLVGPPGTGKTMLA 132
VLL G GTGKT A
Sbjct: 33 VLLTGGTGTGKTTFA 47
>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 = 31.6 bits (71), Expect = 0.36
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 118 VLLVGPPGTGKTMLA 132
LV P G GK+MLA
Sbjct: 33 GALVSPGGAGKSMLA 47
>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 = 31.4 bits (71), Expect = 0.39
Identities = 21/97 (21%), Positives = 34/97 (35%), Gaps = 19/97 (19%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNIT--SSTLT----SKWYGDSEKLIR--LLFLL 169
++L G PG GK+ +K A N ++ S L W E+ I+ L+
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPVWKEKYEEFIKKSTYRLI 66
Query: 170 AKELAPSIVFFDEIDSMCSHRSTSTDVTRRMKSELLC 206
L V D T+ M+ +L+
Sbjct: 67 DSALKNYWVIVD-----------DTNYYNSMRRDLIN 92
>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 = 31.6 bits (71), Expect = 0.39
Identities = 10/78 (12%), Positives = 22/78 (28%)
Query: 111 LRRPWKGVLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLA 170
L++G TGK+ + K E + + + Y + + L
Sbjct: 26 KGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKEI 85
Query: 171 KELAPSIVFFDEIDSMCS 188
+L + +
Sbjct: 86 NKLVKRLPSLLKALKNIQ 103
>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 = 31.0 bits (71), Expect = 0.48
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 121 VGPPGTGKTMLAKAAA 136
+GP G+GKT LA A A
Sbjct: 28 LGPAGSGKTYLAMAKA 43
>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase,
translation; HET: ADP; 2.05A {Sulfolobus solfataricus}
Length = 538
Score = 31.1 bits (71), Expect = 0.59
Identities = 10/30 (33%), Positives = 15/30 (50%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNIT 147
+ ++G G GKT + K A E NF +
Sbjct: 28 LGVLGKNGVGKTTVLKILAGEIIPNFGDPN 57
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 30.5 bits (68), Expect = 0.61
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATETKSNFFNI 146
+ V L GPPG GKT L A+ KS+ +
Sbjct: 2 RHVFLTGPPGVGKTTLIHKASEVLKSSGVPV 32
>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 = 31.0 bits (71), Expect = 0.64
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 16/54 (29%)
Query: 112 RRPWKGVLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRL 165
+RP + +GP G GKT LA+A A F GD E +IR+
Sbjct: 518 KRPIGSFIFLGPTGVGKTELARALAES----IF------------GDEESMIRI 555
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 30.2 bits (69), Expect = 0.70
Identities = 9/34 (26%), Positives = 16/34 (47%)
Query: 111 LRRPWKGVLLVGPPGTGKTMLAKAAATETKSNFF 144
+++ + L+G G GKT + A TK +
Sbjct: 1 MKKNLTNIYLIGLMGAGKTSVGSQLAKLTKRILY 34
>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET:
ATP; NMR {Saccharomyces cerevisiae}
Length = 608
Score = 31.2 bits (71), Expect = 0.71
Identities = 10/32 (31%), Positives = 13/32 (40%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSS 149
+ LVG G GK+ K A + K N
Sbjct: 106 LGLVGTNGIGKSTALKILAGKQKPNLGRFDDP 137
>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 = 29.9 bits (68), Expect = 0.84
Identities = 8/27 (29%), Positives = 13/27 (48%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFF 144
+LVG PG+GK+ + + A
Sbjct: 5 AVLVGLPGSGKSTIGRRLAKALGVGLL 31
>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur
cluster, adenosine diphosphate, nucleotide-binding; HET:
ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*
Length = 607
Score = 30.7 bits (70), Expect = 0.85
Identities = 13/32 (40%), Positives = 15/32 (46%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSS 149
V +VGP GTGKT K A + N S
Sbjct: 120 VGIVGPNGTGKTTAVKILAGQLIPNLCEDNDS 151
>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 = 30.3 bits (68), Expect = 0.88
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 2/41 (4%)
Query: 95 YEAIVLPSIIPAYFDKLRRPWKGVL-LVGPPGTGKTMLAKA 134
Y+ S+ + K + + + L GP TGKT +A+A
Sbjct: 84 YDPQYAASVFLGWATK-KFGKRNTIWLFGPATTGKTNIAEA 123
>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus
thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*
Length = 311
Score = 29.8 bits (68), Expect = 1.2
Identities = 13/25 (52%), Positives = 14/25 (56%)
Query: 112 RRPWKGVLLVGPPGTGKTMLAKAAA 136
RP L +GP G GKT LAK A
Sbjct: 44 NRPIGSFLFLGPTGVGKTELAKTLA 68
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A
{Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 29.4 bits (67), Expect = 1.2
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATETKSNFF 144
K ++ +G G+GK+ LA+A A + F
Sbjct: 5 KNIVFIGFMGSGKSTLARALAKDLDLVFL 33
>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 = 29.5 bits (67), Expect = 1.3
Identities = 7/27 (25%), Positives = 11/27 (40%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFF 144
+ +VG G G T + + A F
Sbjct: 5 IFMVGARGCGMTTVGRELARALGYEFV 31
>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP:
a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*
Length = 549
Score = 30.0 bits (67), Expect = 1.3
Identities = 18/93 (19%), Positives = 37/93 (39%), Gaps = 9/93 (9%)
Query: 118 VLLVGPPGTGKTMLAKAA---ATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELA 174
+ L G G+GK+++A A + + ++ W DS + F L ++
Sbjct: 155 LFLHGRAGSGKSVIASQALSKSDQLIGINYDSIV------WLKDSGTAPKSTFDLFTDIL 208
Query: 175 PSIVFFDEIDSMCSHRSTSTDVTRRMKSELLCQ 207
+ D++ + S ++ V +RM L
Sbjct: 209 LMLKSEDDLLNFPSVEHVTSVVLKRMICNALID 241
>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 = 29.4 bits (67), Expect = 1.3
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATETKSNFF 144
+ + LVGP G GK+ + + A + F+
Sbjct: 5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFY 33
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 30.0 bits (66), Expect = 1.3
Identities = 14/33 (42%), Positives = 17/33 (51%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATETKSNFFNITS 148
LL G PG+GKT L A ET+ N I +
Sbjct: 34 TAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDN 66
>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 = 29.7 bits (67), Expect = 1.3
Identities = 6/18 (33%), Positives = 8/18 (44%)
Query: 119 LLVGPPGTGKTMLAKAAA 136
L+ PG G L A +
Sbjct: 28 LIQALPGMGDDALIYALS 45
>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis,
hydrolyase/translation complex; HET: ADP; 1.90A
{Pyrococcus furiosus}
Length = 538
Score = 30.0 bits (68), Expect = 1.4
Identities = 11/33 (33%), Positives = 15/33 (45%)
Query: 113 RPWKGVLLVGPPGTGKTMLAKAAATETKSNFFN 145
+ V +VGP GTGK+ K A + N
Sbjct: 45 KEGMVVGIVGPNGTGKSTAVKILAGQLIPNLCG 77
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 29.9 bits (66), Expect = 1.5
Identities = 9/29 (31%), Positives = 12/29 (41%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATETKSNFF 144
K + GP +GKT A KS +
Sbjct: 156 KIIFHSGPTNSGKTYHAIQKYFSAKSGVY 184
>4acy_A Endo-alpha-mannosidase; hydrolase, endomannosidase, glycoside
hydrolase, CAZY, enzyme-carbohydrate interaction,
mannose; HET: MSE; 1.69A {Bacteroides thetaiotaomicron}
PDB: 4acz_A 4ad0_A* 4acz_B
Length = 382
Score = 29.8 bits (66), Expect = 1.5
Identities = 22/76 (28%), Positives = 32/76 (42%), Gaps = 6/76 (7%)
Query: 74 KAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAK 133
A T W + A + L+ +PS+ P Y D RPW G GK
Sbjct: 256 NASTPANWKSMQQWAKAHNKLF----IPSVGPGYIDTRIRPWNGSTTR-DRENGKYYDDM 310
Query: 134 -AAATETKSNFFNITS 148
AA E+ +++ +ITS
Sbjct: 311 YKAAIESGASYISITS 326
>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 = 30.1 bits (68), Expect = 1.5
Identities = 22/94 (23%), Positives = 32/94 (34%), Gaps = 6/94 (6%)
Query: 61 EKKLARNILSEVLKAETNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLL 120
EKKLA I + + + D + + +L V+L
Sbjct: 156 EKKLASLIRTLLATPPADGAGNDDWAVPKKARKGLSEEQASVLDQLAGHRL------VVL 209
Query: 121 VGPPGTGKTMLAKAAATETKSNFFNITSSTLTSK 154
G PGTGK+ KA A +S + T K
Sbjct: 210 TGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGK 243
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.1 bits (64), Expect = 1.5
Identities = 12/46 (26%), Positives = 19/46 (41%), Gaps = 20/46 (43%)
Query: 284 DKDVNIEVLAERLEGYSSADITIVCRDAAFMNLRRYLNQNPAVAMK 329
+K ++ L L+ Y AD D+A PA+A+K
Sbjct: 18 EKQ-ALKKLQASLKLY--AD------DSA-----------PALAIK 43
Score = 27.2 bits (59), Expect = 6.3
Identities = 4/24 (16%), Positives = 13/24 (54%), Gaps = 1/24 (4%)
Query: 241 RRLEKRIYVPIPDQATRVSL-LTI 263
++L+ + + D A +++ T+
Sbjct: 23 KKLQASLKLYADDSAPALAIKATM 46
>2o7i_A Oligopeptide ABC transporter, periplasmic oligopeptide-binding
protein; periplasmic binding protein, cellulose,
thermophilic proteins; HET: CBI; 1.50A {Thermotoga
maritima} PDB: 2o7j_A* 3i5o_A*
Length = 592
Score = 29.8 bits (67), Expect = 1.5
Identities = 13/96 (13%), Positives = 29/96 (30%), Gaps = 11/96 (11%)
Query: 233 WDLDEAFRRRLEKRIYVPIPDQATRVSLLTIFLQNVKVD--KDVNIEVLNVKVDKDVNIE 290
W D R + +V D + + +D V + K + +
Sbjct: 197 WGKDIFGLPRPKYLAHVIYKDNPSASLA----FERGDIDWNGLFIPSVWELWEKKGLPVG 252
Query: 291 VLAERLEGYSSADITIVCRDAAFMNLRRYLNQNPAV 326
++ + + V ++N + +PAV
Sbjct: 253 TWYKKEPYFIPDGVGFV-----YVNNTKPGLSDPAV 283
>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 = 29.5 bits (66), Expect = 1.6
Identities = 17/56 (30%), Positives = 24/56 (42%), Gaps = 7/56 (12%)
Query: 81 WADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWK--GVLLVGPPGTGKTMLAKA 134
W I Y+ I L + I A L+ K + +GPP TGK+ML +
Sbjct: 95 WKSILTF-----FNYQNIELITFINALKLWLKGIPKKNCLAFIGPPNTGKSMLCNS 145
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 28.6 bits (65), Expect = 1.7
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 118 VLLVGPPGTGKTMLAKA 134
V L G PGTG+ A+
Sbjct: 27 VWLYGAPGTGRMTGARY 43
>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 = 29.3 bits (66), Expect = 1.8
Identities = 12/21 (57%), Positives = 13/21 (61%)
Query: 118 VLLVGPPGTGKTMLAKAAATE 138
+L GPPGTGKT A A E
Sbjct: 49 LLFYGPPGTGKTSTIVALARE 69
>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 = 28.7 bits (65), Expect = 1.8
Identities = 8/29 (27%), Positives = 15/29 (51%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATETKSNFF 144
+ ++L+G G+GK+ LA+ K
Sbjct: 8 QHLVLIGFMGSGKSSLAQELGLALKLEVL 36
>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein
transport, G protein, proline isomerization, circular
permutation; 2.20A {Saccharomyces cerevisiae}
Length = 193
Score = 28.9 bits (65), Expect = 1.8
Identities = 22/125 (17%), Positives = 45/125 (36%), Gaps = 27/125 (21%)
Query: 118 VLLVGPPGTGKT----MLAKAAATETKSNFFNITSSTLTSK----W-YGDSEKLIRLLFL 168
+++ GP +GKT +L + T + ++++ + KL L
Sbjct: 51 IIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSD 110
Query: 169 LAKELAPS---IVFFDEIDSMCSHRSTSTDVTRRMK--SELLCQMDGLASVSNEDPNK-S 222
K A ++F +D ST +++ +E L + L+ + N
Sbjct: 111 YLKTRAKFVKGLIFM--VD--------STVDPKKLTTTAEFLVDI--LSITESSCENGID 158
Query: 223 VLILA 227
+LI
Sbjct: 159 ILIAC 163
>4ad1_A Glycosyl hydrolase family 71; glycoside hydrolase GH99, CAZY,
enzyme-carbohydra interaction, mannose glycosidase
inhibition; 1.90A {Bacteroides xylanisolvens} PDB:
4ad2_A* 4ad3_A* 4ad4_A* 4ad5_A*
Length = 380
Score = 29.3 bits (65), Expect = 1.9
Identities = 17/69 (24%), Positives = 27/69 (39%), Gaps = 6/69 (8%)
Query: 81 WADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAK-AAATET 139
W + ++ +PS+ P Y D RPW G ++ G+ A A E
Sbjct: 267 WVSMQKWAKENGKIF----IPSVGPGYIDTRIRPWNGSVIR-TRTDGQYYDAMYRKAIEA 321
Query: 140 KSNFFNITS 148
+ +ITS
Sbjct: 322 GVSAISITS 330
>1kht_A Adenylate kinase; phosphotransferase, signaling protein,
transferase; HET: AMP; 2.50A {Methanococcus voltae}
SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A
Length = 192
Score = 28.9 bits (64), Expect = 2.0
Identities = 9/35 (25%), Positives = 14/35 (40%)
Query: 114 PWKGVLLVGPPGTGKTMLAKAAATETKSNFFNITS 148
K V++ G PG G T ++ A + N
Sbjct: 2 KNKVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKM 36
>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography,
emerald biostructures, ATP-binding, cytoplasm,
nucleotide-binding; HET: 5GP; 1.95A {Anaplasma
phagocytophilum}
Length = 231
Score = 29.1 bits (66), Expect = 2.0
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 116 KGVLLV--GPPGTGKTMLAKAAATETKSNF 143
GV+LV P G GKT +A + K+N
Sbjct: 26 VGVILVLSSPSGCGKTTVANKLLEKQKNNI 55
>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for
structural genomics of infec diseases, csgid, putative
guanylate kinase; HET: MSE; 2.05A {Listeria
monocytogenes}
Length = 208
Score = 29.0 bits (66), Expect = 2.2
Identities = 12/37 (32%), Positives = 21/37 (56%), Gaps = 2/37 (5%)
Query: 116 KGVLLV--GPPGTGKTMLAKAAATETKSNFFNITSST 150
+G+L+V GP G GK + +A + +++F S T
Sbjct: 7 RGLLIVLSGPSGVGKGTVREAVFKDPETSFDYSISMT 43
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 29.0 bits (65), Expect = 2.5
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 119 LLVGPPGTGKTMLAKAAATETKSN 142
+V P G+GKT +A AA E +
Sbjct: 112 CIVLPTGSGKTHVAMAAINELSTP 135
>1uqt_A Alpha, alpha-trehalose-phosphate synthase; glycosyltransferase,
transferase; HET: U2F; 2.0A {Escherichia coli} SCOP:
c.87.1.6 PDB: 1uqu_A* 2wtx_A* 1gz5_A*
Length = 482
Score = 29.1 bits (66), Expect = 2.5
Identities = 6/40 (15%), Positives = 16/40 (40%)
Query: 44 VNEMYEAILKKLKLDPEEKKLARNILSEVLKAETNVKWAD 83
+E+ A+ + L + E+ + +V+ W +
Sbjct: 406 RDEVAAALDRALTMSLAERISRHAEMLDVIVKNDINHWQE 445
>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop
kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex
aeolicus}
Length = 168
Score = 28.2 bits (64), Expect = 2.6
Identities = 5/27 (18%), Positives = 12/27 (44%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFF 144
+ L+G +GK+ + + F+
Sbjct: 3 IYLIGFMCSGKSTVGSLLSRSLNIPFY 29
>3l0o_A Transcription termination factor RHO; helicase, RHO factor, RNA
capture mechanism, ATP-binding, hydrolase,
nucleotide-binding, RN binding; 2.35A {Thermotoga
maritima}
Length = 427
Score = 29.1 bits (66), Expect = 2.6
Identities = 9/24 (37%), Positives = 12/24 (50%)
Query: 119 LLVGPPGTGKTMLAKAAATETKSN 142
++V PP GKT + K A N
Sbjct: 179 MIVAPPKAGKTTILKEIANGIAEN 202
>3ice_A Transcription termination factor RHO; transcription, ATPase,
hexamer, helicase, RNA, RECA, OB fold ATP-binding,
hydrolase; HET: MSE ADP SPD; 2.80A {Escherichia coli
k-12} PDB: 1pv4_A 1pvo_A* 1xpo_A* 1xpr_A* 1xpu_A* 2ht1_A
Length = 422
Score = 29.1 bits (66), Expect = 2.7
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 119 LLVGPPGTGKTMLAKAAATETKSN 142
L+V PP GKTML + A N
Sbjct: 178 LIVAPPKAGKTMLLQNIAQSIAYN 201
>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 = 28.5 bits (64), Expect = 2.8
Identities = 12/41 (29%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 119 LLVGPPGTGKTMLAKAAATETKSNFFNI-TSSTLTSKWYGD 158
+V P G+GKT +A AA E + + + L +W
Sbjct: 112 CIVLPTGSGKTHVAMAAINELSTPTLIVVPTLALAEQWKER 152
>3t5t_A Putative glycosyltransferase; GTB fold, pseudoglycosyltransferase;
1.70A {Streptomyces hygroscopicus} PDB: 3t7d_A*
Length = 496
Score = 28.8 bits (65), Expect = 3.0
Identities = 9/40 (22%), Positives = 14/40 (35%)
Query: 44 VNEMYEAILKKLKLDPEEKKLARNILSEVLKAETNVKWAD 83
+ E EAI L P ++ A + + T W
Sbjct: 425 LVEQAEAISAALAAGPRQRAEAAARRRDAARPWTLEAWVQ 464
>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292;
mixed alpha-beta protein, rossman fold, signaling
protein, transferase; 1.40A {Aquifex aeolicus} SCOP:
c.37.1.11
Length = 178
Score = 28.1 bits (62), Expect = 3.3
Identities = 24/166 (14%), Positives = 46/166 (27%), Gaps = 18/166 (10%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSI 177
+++ G PG GKT L K ++ D E R F +
Sbjct: 3 IIITGEPGVGKTTLVKKIVERLGKRAIG-----FWTEEVRDPETKKRTGFRI-ITTEGKK 56
Query: 178 VFFDEIDSMCSHRSTSTDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATNFPWDLDE 237
F S V + EL + A + + V+I+ +
Sbjct: 57 KIFSSKFFTSKKLVGSYGVNVQYFEELAIPILERAYREAKKDRRKVIIIDEIGKMELFSK 116
Query: 238 AFRRRLEKRIYVPIPDQATRVSLLTI-------FLQNVKVDKDVNI 276
FR + + + + TI ++ ++ +
Sbjct: 117 KFRDLVRQIM-----HDPNVNVVATIPIRDVHPLVKEIRRLPGAVL 157
>3co5_A Putative two-component system transcriptional RES regulator;
structural genomics, APC89341.1; 2.40A {Neisseria
gonorrhoeae}
Length = 143
Score = 27.9 bits (63), Expect = 3.4
Identities = 5/17 (29%), Positives = 8/17 (47%)
Query: 118 VLLVGPPGTGKTMLAKA 134
V L G G+ +A+
Sbjct: 30 VFLTGEAGSPFETVARY 46
>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding,
viral nucleoprotein, endoplasmic reticulum, helicase,
hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A*
2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A
2bhr_A
Length = 451
Score = 28.7 bits (64), Expect = 3.5
Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 96 EAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKT 129
A+ P + + R + ++ PG GKT
Sbjct: 2 SAMGEP--DYEVDEDIFRKKRLTIMDLHPGAGKT 33
>1nrj_B SR-beta, signal recognition particle receptor beta subunit;
transmembrane, endoplasmic reticulum, GTP-binding; HET:
GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8
Length = 218
Score = 28.2 bits (63), Expect = 3.5
Identities = 22/125 (17%), Positives = 45/125 (36%), Gaps = 27/125 (21%)
Query: 118 VLLVGPPGTGKT----MLAKAAATETKSNFFNITSSTLTSK----W-YGDSEKLIRLLFL 168
+++ GP +GKT +L + T + ++++ + KL L
Sbjct: 15 IIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSD 74
Query: 169 LAKELAPS---IVFFDEIDSMCSHRSTSTDVTRRMKS--ELLCQMDGLASVSNEDPNK-S 222
K A ++F +D ST +++ + E L + L+ + N
Sbjct: 75 YLKTRAKFVKGLIFM--VD--------STVDPKKLTTTAEFLVDI--LSITESSCENGID 122
Query: 223 VLILA 227
+LI
Sbjct: 123 ILIAC 127
>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 = 28.7 bits (64), Expect = 3.5
Identities = 12/56 (21%), Positives = 19/56 (33%), Gaps = 11/56 (19%)
Query: 83 DIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAKAAATE 138
++ ++ + L P +P +LL GP GTGK A
Sbjct: 15 ALSHNEELTNFLKSLSDQPRDLPH-----------LLLYGPNGTGKKTRCMALLES 59
>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 = 28.0 bits (62), Expect = 3.6
Identities = 26/188 (13%), Positives = 50/188 (26%), Gaps = 49/188 (26%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLIRLLFLLAKELAPSI 177
++ GP G GK+ K LA +L S
Sbjct: 5 YIITGPAGVGKSTTCK----------------------------------RLAAQLDNSA 30
Query: 178 VFFDEIDSMCSHRSTSTDVTRRMKSELLCQMDGLASVSNEDP-NKSVLILAATNFPWDLD 236
E D + L + ++ ++ ++L FP + +
Sbjct: 31 YI--EGDIINHMVVGGYRPPWESDELLALTWKNITDLTVNFLLAQNDVVLDYIAFPDEAE 88
Query: 237 EAFRRRLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVNIEVLNVKVDKDVNIEVLAERL 296
+ K V I I L +++ + ++ + E E +
Sbjct: 89 ALAQTVQAKVDDVEI---------RFIIL---WTNREELLRRDALRKKDEQMGERCLELV 136
Query: 297 EGYSSADI 304
E + S I
Sbjct: 137 EEFESKGI 144
>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 = 28.8 bits (65), Expect = 3.6
Identities = 8/25 (32%), Positives = 11/25 (44%)
Query: 112 RRPWKGVLLVGPPGTGKTMLAKAAA 136
+P L GP G GKT + +
Sbjct: 485 HKPVGSFLFAGPTGVGKTEVTVQLS 509
>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 = 28.5 bits (64), Expect = 3.6
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 118 VLLVGPPGTGKTMLAKAAATE 138
+++ G PG GKT A E
Sbjct: 45 MIISGMPGIGKTTSVHCLAHE 65
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 28.5 bits (63), Expect = 3.7
Identities = 4/17 (23%), Positives = 6/17 (35%)
Query: 118 VLLVGPPGTGKTMLAKA 134
+V GT + A
Sbjct: 122 TAVVARGGTANAIRIAA 138
Score = 27.7 bits (61), Expect = 7.0
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKSNF 143
V+LVG PG+GK+ +A+ +
Sbjct: 27 VILVGSPGSGKSTIAEELCQIINEKY 52
>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}
Length = 181
Score = 28.1 bits (62), Expect = 3.7
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 116 KGVLLVGPPGTGKTMLA 132
GVL+ G GK+ L+
Sbjct: 17 MGVLITGEANIGKSELS 33
>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 = 28.2 bits (63), Expect = 3.8
Identities = 13/56 (23%), Positives = 21/56 (37%), Gaps = 7/56 (12%)
Query: 81 WADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKG--VLLVGPPGTGKTMLAKA 134
W I L Y+ I + + A L+ K ++ GP TGK+ +
Sbjct: 27 WRPIVQF-----LRYQQIEFITFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMS 77
>2qm1_A Glucokinase; alpha-beta structure, putative helix-turn-helix,
structural PSI-2, protein structure initiative; HET:
MSE; 2.02A {Enterococcus faecalis}
Length = 326
Score = 28.4 bits (64), Expect = 4.1
Identities = 10/58 (17%), Positives = 19/58 (32%), Gaps = 18/58 (31%)
Query: 218 DPNKSVLILAATNFPWDLDEAFRRRLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVN 275
D K ++ A N W + + ++E + +P +D D N
Sbjct: 80 DIEKGT-VVGAYNLNWTTVQPVKEQIESALGIP-----------------FALDNDAN 119
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 28.7 bits (65), Expect = 4.1
Identities = 13/25 (52%), Positives = 14/25 (56%)
Query: 112 RRPWKGVLLVGPPGTGKTMLAKAAA 136
RP L +GP G GKT LAK A
Sbjct: 585 NRPIGSFLFLGPTGVGKTELAKTLA 609
>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural
genomics, structural genomics of pathogenic protozoa
consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}
Length = 204
Score = 27.9 bits (63), Expect = 4.2
Identities = 12/30 (40%), Positives = 14/30 (46%), Gaps = 2/30 (6%)
Query: 116 KGVLLV--GPPGTGKTMLAKAAATETKSNF 143
+ LV GP G GK L K +E S F
Sbjct: 11 RIPPLVVCGPSGVGKGTLIKKVLSEFPSRF 40
>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 = 28.3 bits (63), Expect = 4.3
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 118 VLLVGPPGTGKTMLAKAAATE 138
+L GPPGTGKT A E
Sbjct: 61 MLFYGPPGTGKTSTILALTKE 81
>2rov_A RHO-associated protein kinase 2; ATP-binding, coiled coil,
cytoplasm, membrane, metal-binding, nucleotide-binding,
phorbol-ester binding; NMR {Rattus norvegicus}
Length = 117
Score = 27.3 bits (60), Expect = 4.4
Identities = 14/60 (23%), Positives = 22/60 (36%)
Query: 171 KELAPSIVFFDEIDSMCSHRSTSTDVTRRMKSELLCQMDGLASVSNEDPNKSVLILAATN 230
KE + + D T TDV R E+ L + K++L+LA +
Sbjct: 41 KEQSNPYMVLDIDKLFHVRPVTQTDVYRADAKEIPRIFQILYANEGISSAKNLLLLANST 100
>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 = 27.6 bits (62), Expect = 4.6
Identities = 11/29 (37%), Positives = 13/29 (44%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATETKSNFF 144
+ L G G GKT L KA A + F
Sbjct: 26 VRIFLTGYMGAGKTTLGKAFARKLNVPFI 54
>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate
metabolism, magnesium, metal-binding, multifunctional
enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A
1kkm_A*
Length = 205
Score = 27.7 bits (61), Expect = 5.0
Identities = 8/17 (47%), Positives = 10/17 (58%)
Query: 116 KGVLLVGPPGTGKTMLA 132
GVL+ G G GK+ A
Sbjct: 35 LGVLITGDSGVGKSETA 51
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function
initiative, EFI, STRU genomics, transferase; 1.60A
{Janibacter SP}
Length = 200
Score = 27.7 bits (61), Expect = 5.0
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 113 RPWKGVLLVGPPGTGKTMLAKAAATETKSNFFNITS 148
P + V+++G G+GKT +A A ET F +
Sbjct: 27 EPTRHVVVMGVSGSGKTTIAHGVADETGLEFAEADA 62
>3hdt_A Putative kinase; structura genomics, PSI-2, protein structure
initiative, midwest CENT structural genomics, MCSG;
2.79A {Clostridium symbiosum atcc 14940}
Length = 223
Score = 27.8 bits (61), Expect = 5.3
Identities = 15/92 (16%), Positives = 33/92 (35%), Gaps = 5/92 (5%)
Query: 122 GPPGTGKTMLAKAAATETKSNFFNITSSTLTSKWYGDSEKLI-----RLLFLLAKELAPS 176
G+G ++ K A E +F++ L S+ E+ + L L
Sbjct: 21 REYGSGGRIVGKKLAEELGIHFYDDDILKLASEKSAVGEQFFRLADEKAGNNLLYRLGGG 80
Query: 177 IVFFDEIDSMCSHRSTSTDVTRRMKSELLCQM 208
+ + TS + + +SE++ ++
Sbjct: 81 RKIDLHSKPSPNDKLTSPENLFKFQSEVMREL 112
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain,
PIN-tower interface, coupling hydrolysis to DNA
unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Length = 459
Score = 28.1 bits (62), Expect = 5.4
Identities = 9/19 (47%), Positives = 10/19 (52%)
Query: 116 KGVLLVGPPGTGKTMLAKA 134
V + GP GTG T L K
Sbjct: 46 HHVTINGPAGTGATTLTKF 64
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 28.0 bits (62), Expect = 5.7
Identities = 29/113 (25%), Positives = 40/113 (35%), Gaps = 6/113 (5%)
Query: 17 HLPGSLINNLTPSTPLLNIIQLNQDKPVNEMYEAILKKLKLDPEEKKLARNILSEVLKAE 76
L S T T + + + M +A LKK +KK L +
Sbjct: 283 ELKPSKTPPPTHLTTGFTAEFIWKGTSYDRMQDA-LKKFA---IDKKSISGYLYYKILGH 338
Query: 77 TNVKWADIAGLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKT 129
V + L + A + S A L+RP L+ GPPGTGKT
Sbjct: 339 QVVDISFDVPLPKEFSIPNFAQLNSSQSNAVSHVLQRPL--SLIQGPPGTGKT 389
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat
ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 27.8 bits (62), Expect = 5.8
Identities = 15/59 (25%), Positives = 20/59 (33%), Gaps = 2/59 (3%)
Query: 86 GLDDAKDLLYEAIVLPSIIPAYFDKLRRPWKGVLLVGPPGTGKTMLAKAAATETKSNFF 144
G E +L L + + LVG G+GKT + K A FF
Sbjct: 21 GSLLHSPFDEEQQILKKKAEEVKPYLNG--RSMYLVGMMGSGKTTVGKIMARSLGYTFF 77
>4dcc_A Putative haloacid dehalogenase-like hydrolase; magnesium binding
site, enzyme function initiativ; 1.65A {Bacteroides
thetaiotaomicron} PDB: 4dfd_A 4f71_A 4f72_A
Length = 229
Score = 27.5 bits (61), Expect = 5.9
Identities = 7/20 (35%), Positives = 14/20 (70%)
Query: 42 KPVNEMYEAILKKLKLDPEE 61
KP E+++A+ + +DP+E
Sbjct: 173 KPEPEIFKAVTEDAGIDPKE 192
>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding
protein; 2.30A {Archaeoglobus fulgidus}
Length = 221
Score = 27.6 bits (62), Expect = 5.9
Identities = 9/28 (32%), Positives = 16/28 (57%), Gaps = 5/28 (17%)
Query: 109 DKLRRPWK--GVL---LVGPPGTGKTML 131
+K R + G + ++G G+GKT+L
Sbjct: 19 EKNREALRESGTVAVNIMGAIGSGKTLL 46
>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and
beta protein; HET: GSP; 1.90A {Methanocaldococcus
jannaschii} PDB: 2hf8_A*
Length = 226
Score = 27.6 bits (62), Expect = 5.9
Identities = 6/12 (50%), Positives = 9/12 (75%)
Query: 120 LVGPPGTGKTML 131
+G G+GKT+L
Sbjct: 43 FMGAIGSGKTLL 54
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 27.9 bits (61), Expect = 6.7
Identities = 42/265 (15%), Positives = 75/265 (28%), Gaps = 52/265 (19%)
Query: 118 VLLVGPPGTGKTMLAKAAATETKS--------------NFFNITSSTLT----------- 152
LL G GTGKT +A+ ++ N + +
Sbjct: 47 ALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVR 106
Query: 153 --SKWYGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHRSTSTDVTRRMKSELLCQMDG 210
E RL+ L++ I+ DEID + R +LL ++
Sbjct: 107 VPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFL---------PKRPGGQDLLYRITR 157
Query: 211 LASVSNEDPNKSVLILAAT-NFPWDLDEAFRRRLEKRIYVPIPDQATRVSLLTIFLQNVK 269
+ + S++ + + F +L+ + L + V P T L I +
Sbjct: 158 INQELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPP--YTAPQLRDILETRAE 215
Query: 270 VDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADITIVCRDAAFMNLRRYLNQNPAVAMK 329
E N V + + A L D A LR +
Sbjct: 216 -------EAFNPGVLDPDVVPLCA-ALAAREHGDAR-----RALDLLRVAGEIAERRREE 262
Query: 330 DIPDKELDKAIVQADFDEAVRNCPK 354
+ + + A + + D
Sbjct: 263 RVRREHVYSARAEIERDRVSEVVRT 287
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 27.4 bits (60), Expect = 6.9
Identities = 7/32 (21%), Positives = 12/32 (37%)
Query: 116 KGVLLVGPPGTGKTMLAKAAATETKSNFFNIT 147
K ++ G PG GK+ + + N
Sbjct: 2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINNK 33
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 27.6 bits (61), Expect = 7.1
Identities = 6/14 (42%), Positives = 10/14 (71%)
Query: 116 KGVLLVGPPGTGKT 129
+ +L+ G GTGK+
Sbjct: 54 RHLLVNGATGTGKS 67
>1miw_A TRNA CCA-adding enzyme; tRNA nucleotidyltransferase, translation,
transferase; HET: ATP; 3.00A {Geobacillus
stearothermophilus} SCOP: a.173.1.1 d.218.1.4 PDB:
1miv_A* 1miy_A*
Length = 404
Score = 27.7 bits (62), Expect = 7.9
Identities = 15/73 (20%), Positives = 26/73 (35%), Gaps = 5/73 (6%)
Query: 46 EMYEAILKKLKLDPEEKKLARNILSEVLKAETNVKWADIA----GLDDAKDLLY-EAIVL 100
+ L+ KL + A IL+ + W + GL+ A + A
Sbjct: 262 QESRPFLRAWKLPNKVVDEAGAILTALADIPRPEAWTNEQLFSAGLERALSVETVRAAFT 321
Query: 101 PSIIPAYFDKLRR 113
+ + +KLRR
Sbjct: 322 GAPPGPWHEKLRR 334
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB:
1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 27.3 bits (60), Expect = 8.7
Identities = 8/15 (53%), Positives = 10/15 (66%)
Query: 117 GVLLVGPPGTGKTML 131
V+ VG G+GKT L
Sbjct: 16 IVVFVGTAGSGKTTL 30
>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide-
binding; HET: 5GP; 1.9A {Staphylococcus aureus}
Length = 207
Score = 27.1 bits (61), Expect = 8.8
Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 116 KGVLLV--GPPGTGKTMLAKAAATETKSNF 143
KG+L+V GP G GK + K + +++
Sbjct: 5 KGLLIVLSGPSGVGKGTVRKRIFEDPSTSY 34
>2i6x_A Hydrolase, haloacid dehalogenase-like family; HAD superfamily,
struct genomics, PSI-2, protein structure initiative;
HET: MSE; 2.40A {Porphyromonas gingivalis}
Length = 211
Score = 27.0 bits (60), Expect = 9.1
Identities = 5/20 (25%), Positives = 11/20 (55%)
Query: 42 KPVNEMYEAILKKLKLDPEE 61
KP +++ ++ + PEE
Sbjct: 150 KPNEDIFLEMIADSGMKPEE 169
>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 = 27.2 bits (59), Expect = 9.3
Identities = 36/272 (13%), Positives = 69/272 (25%), Gaps = 55/272 (20%)
Query: 122 GPPGTGKTMLAKAAATE-----------------------TKSNFFNITSSTLTSKW--- 155
G G GKT LAK ++
Sbjct: 59 GRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVR 118
Query: 156 -YGDSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHRSTSTDVTRRMKSELLCQMDGLASV 214
+ L L+ L E +V DE SM S + + L + +
Sbjct: 119 GAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAED-------LYTLLRVHEEI 171
Query: 215 SNEDPNKSVLILAATNFPWDLDEAFRR------RLEKRIYVPIPDQATRVSLLTIFLQNV 268
+ D + L + L + ++ ++++P ++L +
Sbjct: 172 PSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELG 231
Query: 269 KVDKDVNIEVLNVKVDKDVNIEVLAERLEGYSSADITI-VCRDAAFMNLRRYLNQNPAVA 327
D L + D E G SA I + A M
Sbjct: 232 LRDTVWEPRHLELISDV------YGEDKGGDGSARRAIVALKMACEMAEAM--------G 277
Query: 328 MKDIPDKELDKAIVQADFDEAVRNCPKTVRPE 359
+ + + KA+ + + + + +
Sbjct: 278 RDSLSEDLVRKAVSENEAASIQTHELEALSIH 309
>3l7y_A Putative uncharacterized protein SMU.1108C; hydrolase; 2.00A
{Streptococcus mutans}
Length = 304
Score = 27.2 bits (61), Expect = 9.5
Identities = 10/141 (7%), Positives = 44/141 (31%), Gaps = 21/141 (14%)
Query: 158 DSEKLIRLLFLLAKELAPSIVFFDEIDSMCSHRSTSTDVTRRMKSEL--LCQMDGLASVS 215
E + +++ + ++ +++ + S ++ + + L ++ + +
Sbjct: 119 QREDIASIIYFIEEKYPQAVIALSGEKKGYLKKGVSENIVKMLSPFFPVLELVNSFSPLP 178
Query: 216 NEDPNKSVLILAATNFPWDLDEAFRRRLEKRIYVPIPDQATRVSLLTIFLQNVKVDKDVN 275
+E K L + + + + + + +
Sbjct: 179 DERFFK----LTLQVKEEESAQIMKAIADYKT----SQRLVGTA-----------SGFGY 219
Query: 276 IEVLNVKVDKDVNIEVLAERL 296
I+++ + K ++ L +R
Sbjct: 220 IDIITKGLHKGWALQQLLKRW 240
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 27.0 bits (60), Expect = 10.0
Identities = 27/125 (21%), Positives = 40/125 (32%), Gaps = 27/125 (21%)
Query: 118 VLLVGPPGTGKT------MLAKAAATET--KSNFFNITSSTLTSK----W-YGDSEKLIR 164
VL VG +GKT + + T+T + + E L
Sbjct: 10 VLFVGLCDSGKTLLFVRLLTGQYRDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRF 69
Query: 165 LLFLLAKELAPSIVFFDEIDSMCSHRSTSTDVTRRMKS--ELLCQMDGLASVSNEDPNKS 222
L K A ++VF +D S R +K E L Q+ L + S
Sbjct: 70 QLLDRFKSSARAVVFV--VD--------SAAFQREVKDVAEFLYQV--LIDSMALKNSPS 117
Query: 223 VLILA 227
+LI
Sbjct: 118 LLIAC 122
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
0.318 0.134 0.389
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,812,162
Number of extensions: 360806
Number of successful extensions: 1538
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1419
Number of HSP's successfully gapped: 218
Length of query: 371
Length of database: 6,701,793
Length adjustment: 95
Effective length of query: 276
Effective length of database: 4,049,298
Effective search space: 1117606248
Effective search space used: 1117606248
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.0 bits)