RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7673
(541 letters)
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 406 bits (1047), Expect = e-141
Identities = 144/250 (57%), Positives = 184/250 (73%), Gaps = 9/250 (3%)
Query: 3 PVKYPKLF---GKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGES 59
PV+ P F G TP+GVLL GPPGCGKTLLAKAVANE+G+NFISVKGPELLNMY+GES
Sbjct: 29 PVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGES 88
Query: 60 ERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGGV 119
ERAVRQ FQRA+NS PCVIFFDE+DALCP+RS + +S+R+VNQLLTEMDG E R V
Sbjct: 89 ERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSD-RETGASVRVVNQLLTEMDGLEARQQV 147
Query: 120 FLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDK 179
F+MAATNRPDIIDPA++RPGR D+ LFV LP DR IL +TK G P + DV+ +
Sbjct: 148 FIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEA 207
Query: 180 IAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVTIGFRHFDIALK 239
IA D RC+ ++GADL LV+EA A+ + + ++ ++ ++ + +HF+ A K
Sbjct: 208 IAGDLRCDCYTGADLSALVREASICALRQEMARQKSG-----NEKGELKVSHKHFEEAFK 262
Query: 240 RIKPSVSKAD 249
+++ S+SK D
Sbjct: 263 KVRSSISKKD 272
>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 = 393 bits (1013), Expect = e-135
Identities = 119/272 (43%), Positives = 168/272 (61%), Gaps = 19/272 (6%)
Query: 2 FPVKYPKLF---GKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGE 58
+PV++P F G + GVL GPPGCGKTLLAKA+ANE NFIS+KGPELL M+ GE
Sbjct: 33 YPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGE 92
Query: 59 SERAVRQCFQRARNSQPCVIFFDEIDALCPKR-SSLGDNNSSM-RIVNQLLTEMDGFEGR 116
SE VR+ F +AR + PCV+FFDE+D++ R ++GD + R++NQ+LTEMDG +
Sbjct: 93 SEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTK 152
Query: 117 GGVFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVD 176
VF++ ATNRPDIIDPA++RPGR D+++++ LP+E+ R IL A + K P + +DVD
Sbjct: 153 KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLR--KSP-VAKDVD 209
Query: 177 FDKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVEN---------DDQAGIDDTEQV 227
+ +A + GFSGADL ++ + A + AI E + S +D
Sbjct: 210 LEFLA--KMTNGFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVP 267
Query: 228 TIGFRHFDIALKRIKPSVSKADCKNYESLKQR 259
I HF+ A++ + SVS D + YE Q
Sbjct: 268 EIRRDHFEEAMRFARRSVSDNDIRKYEMFAQT 299
>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 = 375 bits (965), Expect = e-121
Identities = 117/272 (43%), Positives = 163/272 (59%), Gaps = 19/272 (6%)
Query: 3 PVKYPKLF---GKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGES 59
PV++P F G + GVL GPPGCGKTLLAKA+ANE NFIS+KGPELL M+ GES
Sbjct: 496 PVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGES 555
Query: 60 ERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSM--RIVNQLLTEMDGFEGRG 117
E VR+ F +AR + PCV+FFDE+D++ R + R++NQ+LTEMDG +
Sbjct: 556 EANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKK 615
Query: 118 GVFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDF 177
VF++ ATNRPDIIDPA++RPGR D+++++ LP+E+ R IL A + K P + +DVD
Sbjct: 616 NVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLR--KSP-VAKDVDL 672
Query: 178 DKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVEN---------DDQAGIDDTEQVT 228
+ +A + GFSGADL ++ + A + AI E + S +D
Sbjct: 673 EFLA--KMTNGFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPE 730
Query: 229 IGFRHFDIALKRIKPSVSKADCKNYESLKQRY 260
I HF+ A++ + SVS D + YE Q
Sbjct: 731 IRRDHFEEAMRFARRSVSDNDIRKYEMFAQTL 762
Score = 281 bits (720), Expect = 1e-85
Identities = 102/247 (41%), Positives = 145/247 (58%), Gaps = 10/247 (4%)
Query: 2 FPVKYPKLF---GKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGE 58
P+++P LF G P G+LL GPPG GKTL+A+AVANE G F + GPE+++ GE
Sbjct: 222 LPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE 281
Query: 59 SERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGG 118
SE +R+ F+ A + P +IF DE+DA+ PKR RIV+QLLT MDG + R
Sbjct: 282 SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVER-RIVSQLLTLMDGLKQRAH 340
Query: 119 VFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFD 178
V +MAATNRP+ IDPA+ R GRFDR + + +P+ R EIL T K+ + +DVD +
Sbjct: 341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHT---KNMKLADDVDLE 397
Query: 179 KIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDT-EQVTIGFRHFDIA 237
++A G GADL L EA QAI + ++ ++ +D+ + + + F A
Sbjct: 398 QVA--NETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWA 455
Query: 238 LKRIKPS 244
L + PS
Sbjct: 456 LSQSNPS 462
>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 = 298 bits (765), Expect = 7e-98
Identities = 93/290 (32%), Positives = 148/290 (51%), Gaps = 37/290 (12%)
Query: 1 MFPVKYPKLF-GKSTPS-GVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGE 58
+ PVK+P LF G P+ G+LL GPPG GK+ LAKAVA EA F SV +L++ ++GE
Sbjct: 35 ILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGE 94
Query: 59 SERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGF-EGRG 117
SE+ V+Q F AR ++P +IF D++DAL R G++ +S RI +LL +M+G
Sbjct: 95 SEKLVKQLFAMARENKPSIIFIDQVDALTGTRGE-GESEASRRIKTELLVQMNGVGNDSQ 153
Query: 118 GVFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDF 177
GV ++ ATN P +D A+ R RF+R +++ LP+ R + G P + D+
Sbjct: 154 GVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINV--GDTPCVLTKEDY 209
Query: 178 DKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVT--------- 228
+ EG+SG+D+ +VK+A Q I +I ++ D + DD +
Sbjct: 210 RTLG--AMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPCSPGDDG 267
Query: 229 ------------------IGFRHFDIALKRIKPSVSKADCKNYESLKQRY 260
+ + F A+K +P+V++ D E + +
Sbjct: 268 AIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTVNEDDLLKQEQFTRDF 317
>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 = 302 bits (774), Expect = 5e-97
Identities = 103/247 (41%), Positives = 145/247 (58%), Gaps = 10/247 (4%)
Query: 2 FPVKYPKLF---GKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGE 58
P+++P LF G P G+LL GPPG GKTL+A+AVANE G F + GPE+++ GE
Sbjct: 222 LPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGE 281
Query: 59 SERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGG 118
SE +R+ F+ A + P +IF DE+DA+ PKR RIV+QLLT MDG + R
Sbjct: 282 SESNLRKAFEEAEKNAPAIIFIDELDAIAPKREK-THGEVERRIVSQLLTLMDGLKQRAH 340
Query: 119 VFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFD 178
V +MAATNRP+ IDPA+ R GRFDR + + +P+ R EIL TK K + +DVD +
Sbjct: 341 VIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMK---LADDVDLE 397
Query: 179 KIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQA-GIDDTEQVTIGFRHFDIA 237
++A G GADL L EA QAI + ++ ++ +D+ + + + F A
Sbjct: 398 QVA--NETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWA 455
Query: 238 LKRIKPS 244
L + PS
Sbjct: 456 LSQSNPS 462
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 293 bits (751), Expect = 9e-96
Identities = 84/297 (28%), Positives = 142/297 (47%), Gaps = 44/297 (14%)
Query: 1 MFPVKYPKLF-GKSTPS-GVLLCGPPGCGKTLLAKAVANEAGI-NFISVKGPELLNMYLG 57
+ P+K+P LF GK TP G+LL GPPG GK+ LAKAVA EA F S+ +L++ +LG
Sbjct: 29 ILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLG 88
Query: 58 ESERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFE-GR 116
ESE+ V+ FQ AR ++P +IF DEID+LC RS ++ ++ RI + L +M G
Sbjct: 89 ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSE-NESEAARRIKTEFLVQMQGVGVDN 147
Query: 117 GGVFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVD 176
G+ ++ ATN P ++D A+ R RF++ +++ LP R + + D
Sbjct: 148 DGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLG--TTQNSLTEAD 203
Query: 177 FDKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVT-------- 228
F ++ + +G+SGAD+ +V++A Q + ++ ++ G +
Sbjct: 204 FRELG--RKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPNHLVDDLLTP 261
Query: 229 -------------------------IGFRHFDIALKRIKPSVSKADCKNYESLKQRY 260
+ +L KP+V++ D + + +
Sbjct: 262 CSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRSLSNTKPTVNEHDLLKLKKFTEDF 318
>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 = 285 bits (732), Expect = 2e-92
Identities = 92/290 (31%), Positives = 147/290 (50%), Gaps = 37/290 (12%)
Query: 1 MFPVKYPKLF--GKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGE 58
+ PVK+P LF + SG+LL GPPG GK+ LAKAVA EA F SV +L++ ++GE
Sbjct: 68 ILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGE 127
Query: 59 SERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGF-EGRG 117
SE+ V+Q F AR ++P +IF D++DAL R G++ +S RI +LL +M+G
Sbjct: 128 SEKLVKQLFAMARENKPSIIFIDQVDALTGTRGE-GESEASRRIKTELLVQMNGVGNDSQ 186
Query: 118 GVFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDF 177
GV ++ ATN P +D A+ R RF+R +++ LP+ R + G P + D+
Sbjct: 187 GVLVLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINV--GDTPSVLTKEDY 242
Query: 178 DKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVT--------- 228
+ EG+SG+D+ +VK+A Q I +I ++ D + DD +
Sbjct: 243 RTLG--AMTEGYSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPSSPGDDG 300
Query: 229 ------------------IGFRHFDIALKRIKPSVSKADCKNYESLKQRY 260
+ + F A+K +P+V++ D E + +
Sbjct: 301 AIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTVNEDDLLKQEQFTRDF 350
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 282 bits (723), Expect = 8e-92
Identities = 95/265 (35%), Positives = 147/265 (55%), Gaps = 16/265 (6%)
Query: 1 MFPVKYPKLF-GKSTP-SGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGE 58
+ P P+LF G P G+LL GPPG GKTLLA+AVA E F+++ L + Y+G+
Sbjct: 38 ILPSVRPELFTGLRAPAKGLLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGD 97
Query: 59 SERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGG 118
E+ VR F AR+ QP +IF DE+D+L +RSS ++ +S R+ + L E DG G
Sbjct: 98 GEKLVRALFAVARHMQPSIIFIDEVDSLLSERSS-SEHEASRRLKTEFLVEFDGLPGNPD 156
Query: 119 ---VFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDV 175
+ ++AATNRP +D A +R RF + ++V+LP+EQ R+ +L L + K +
Sbjct: 157 GDRIVVLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQ--KQGSPLDTE 212
Query: 176 DFDKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVTIGFRHFD 235
++A + +G+SG+DL L K+A + I E+ + +D + I + F
Sbjct: 213 ALRRLA--KITDGYSGSDLTALAKDAALEPIRELN----VEQVKCLDISAMRAITEQDFH 266
Query: 236 IALKRIKPSVSKADCKNYESLKQRY 260
+LKRI+ SV+ +YE Q Y
Sbjct: 267 SSLKRIRRSVAPQSLNSYEKWSQDY 291
>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 = 283 bits (727), Expect = 1e-91
Identities = 91/264 (34%), Positives = 144/264 (54%), Gaps = 15/264 (5%)
Query: 1 MFPVKYPKLF-GKSTP-SGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGE 58
++P+ P +F G P G+LL GPPG GKTL+ K +A+++G F S+ L + ++GE
Sbjct: 101 VWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGE 160
Query: 59 SERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRG- 117
E+ VR F AR QP VIF DEID+L +R G++ SS RI + L ++DG
Sbjct: 161 GEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGD-GEHESSRRIKTEFLVQLDGATTSSE 219
Query: 118 -GVFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVD 176
+ ++ ATNRP ID A R R + L++ LP RK+I++ L K+ + +
Sbjct: 220 DRILVVGATNRPQEIDEAARR--RLVKRLYIPLPEASARKQIVINLMS--KEQCCLSEEE 275
Query: 177 FDKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVTIGFRHFDI 236
++I ++ + FSGAD+ QL +EA I + + D A I + I + F+
Sbjct: 276 IEQIV--QQSDAFSGADMTQLCREASLGPIRSLQTA----DIATITPDQVRPIAYIDFEN 329
Query: 237 ALKRIKPSVSKADCKNYESLKQRY 260
A + ++PSVS D + YE+ + +
Sbjct: 330 AFRTVRPSVSPKDLELYENWNKTF 353
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 279 bits (716), Expect = 1e-89
Identities = 94/258 (36%), Positives = 139/258 (53%), Gaps = 15/258 (5%)
Query: 1 MFPVKYPKLF-GKSTP-SGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGE 58
+ P P+LF G P G+LL GPPG GKT+LAKAVA E+ F ++ L + Y+GE
Sbjct: 132 ILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGE 191
Query: 59 SERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRG- 117
E+ VR F AR QP +IF D++D+L +R G++++S R+ + L E DG + G
Sbjct: 192 GEKLVRALFAVARELQPSIIFIDQVDSLLCERRE-GEHDASRRLKTEFLIEFDGVQSAGD 250
Query: 118 -GVFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVD 176
V +M ATNRP +D AV+R RF + ++V+LPNE+ R +L L K +
Sbjct: 251 DRVLVMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNLLC--KQGSPLTQKE 306
Query: 177 FDKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVTIGFRHFDI 236
++A +G+SG+DL L K+A I E+ + + +E I F
Sbjct: 307 LAQLA--RMTDGYSGSDLTALAKDAALGPIRELK----PEQVKNMSASEMRNIRLSDFTE 360
Query: 237 ALKRIKPSVSKADCKNYE 254
+LK+IK SVS + Y
Sbjct: 361 SLKKIKRSVSPQTLEAYI 378
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 274 bits (704), Expect = 4e-89
Identities = 110/268 (41%), Positives = 147/268 (54%), Gaps = 29/268 (10%)
Query: 3 PVKYPKLF---GKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGES 59
P+K+P+LF G P G+LL GPPG GKTLLAKAVA E FI V G EL+ ++GE
Sbjct: 36 PLKHPELFEKVGIEPPKGILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEG 95
Query: 60 ERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSS--MRIVNQLLTEMDGFEGRG 117
V+ F+ A+ P +IF DEIDA+ KR+ R + QLL EMDGF+ RG
Sbjct: 96 ASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARG 155
Query: 118 GVFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPM-MGEDVD 176
V ++ ATNRPDI+DPA++RPGRFDRI+ V P+E+ R EIL T+ M + EDV+
Sbjct: 156 DVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTR----KMNLAEDVN 211
Query: 177 FDKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVTIGFRHFDI 236
++IA + EG GA+L+ + EA AI E+ + V DD F
Sbjct: 212 LEEIA--KMTEGCVGAELKAICTEAGMNAIRELRDYVTMDD----------------FRK 253
Query: 237 ALKRIKPSVSKADCKNYESLKQRYTTPG 264
A+++I K K L Y
Sbjct: 254 AVEKIMEK-KKVKVKEPAHLDVLYRLEH 280
>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 = 273 bits (699), Expect = 2e-86
Identities = 80/297 (26%), Positives = 140/297 (47%), Gaps = 44/297 (14%)
Query: 1 MFPVKYPKLF--GKSTPSGVLLCGPPGCGKTLLAKAVANEAGI-NFISVKGPELLNMYLG 57
+ P+K+P LF ++ G+LL GPPG GK+ LAKAVA EA F S+ +L++ +LG
Sbjct: 151 ILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLG 210
Query: 58 ESERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRG 117
ESE+ V+ FQ AR ++P +IF DEID+LC RS ++ ++ RI + L +M G
Sbjct: 211 ESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSE-NESEAARRIKTEFLVQMQGVGVDN 269
Query: 118 -GVFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVD 176
G+ ++ ATN P ++D A+ R RF++ +++ LP R + + D
Sbjct: 270 DGILVLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLG--STQNSLTEAD 325
Query: 177 FDKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVT-------- 228
F ++ + +G+SGAD+ +V++A Q + ++ ++ G +
Sbjct: 326 FQELG--RKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADPNCIVNDLLTP 383
Query: 229 -------------------------IGFRHFDIALKRIKPSVSKADCKNYESLKQRY 260
+ +L KP+V++ D + + +
Sbjct: 384 CSPGDPGAIEMTWMDVPGDKLLEPVVSMWDMLRSLSSTKPTVNEQDLLKLKKFTEDF 440
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 266 bits (681), Expect = 1e-85
Identities = 48/273 (17%), Positives = 91/273 (33%), Gaps = 36/273 (13%)
Query: 2 FPVKYPKLF----GKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLG 57
V K F P + + G G GK+ + V + GIN I + EL + G
Sbjct: 19 LVVHITKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAG 78
Query: 58 ESERAVRQCFQRA----RNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTE---- 109
E + +RQ ++ A R C +F +++DA + + ++VN L
Sbjct: 79 EPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADN 138
Query: 110 --------MDGFEGRGGVFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLA 161
M + V ++ N + ++R GR ++ + P +DR +
Sbjct: 139 PTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWA--PTREDRIGVCTG 196
Query: 162 LTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGI 221
+ + +V + + + + F G ++ E+ V I
Sbjct: 197 IFRTD-------NVPAEDVV--KIVDNFPGQSIDFFGALRARVYDDEVRKWVSGTGIEKI 247
Query: 222 DDTEQVTIGFRHFDIALKRIKPSVSKADCKNYE 254
D FD +P ++ Y
Sbjct: 248 GDKLL-----NSFDGPPTFEQPKMTIEKLLEYG 275
>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 = 220 bits (562), Expect = 2e-68
Identities = 87/202 (43%), Positives = 118/202 (58%), Gaps = 7/202 (3%)
Query: 3 PVKYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERA 62
P ++ +L K P G LL GPPGCGKTLLAKAVA EA + F+++ G E + + G
Sbjct: 28 PERFLQLGAK-VPKGALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAAR 86
Query: 63 VRQCFQRARNSQPCVIFFDEIDALCPKRSS---LGDNNSSMRIVNQLLTEMDGFEGRGGV 119
VR F+ AR PC+++ DEIDA+ KRS+ N + +NQLL EMDG V
Sbjct: 87 VRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHV 146
Query: 120 FLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDK 179
++A+TNR DI+D A+MRPGR DR +F++LP Q+R+EI K K + + F
Sbjct: 147 IVLASTNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLK---LTQSSTFYS 203
Query: 180 IAADERCEGFSGADLEQLVKEA 201
E GFSGAD+ + EA
Sbjct: 204 QRLAELTPGFSGADIANICNEA 225
>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 = 218 bits (557), Expect = 8e-68
Identities = 92/201 (45%), Positives = 129/201 (64%), Gaps = 8/201 (3%)
Query: 3 PVKYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERA 62
P ++ ++ + P GVLL GPPG GKT LA+AVA EA + FI+ G + + M++G
Sbjct: 38 PSRFHEMGAR-IPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAAR 96
Query: 63 VRQCFQRARNSQPCVIFFDEIDALCPKRSS--LGDNNSSMRIVNQLLTEMDGFEGRGGVF 120
VR F+ A+ PC++F DEIDA+ KR S G N+ + +NQLL EMDGFE +
Sbjct: 97 VRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV 156
Query: 121 LMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDKI 180
+MAATNRPDI+DPA++RPGRFDR + ++ P+ + R++IL + P + EDVD +
Sbjct: 157 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKP-LAEDVDLALL 213
Query: 181 AADERCEGFSGADLEQLVKEA 201
A +R GF GADLE L+ EA
Sbjct: 214 A--KRTPGFVGADLENLLNEA 232
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 218 bits (557), Expect = 1e-67
Identities = 93/201 (46%), Positives = 133/201 (66%), Gaps = 8/201 (3%)
Query: 3 PVKYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERA 62
P ++ KL GK P GVL+ GPPG GKTLLAKA+A EA + F ++ G + + M++G
Sbjct: 34 PSRFQKLGGK-IPKGVLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASR 92
Query: 63 VRQCFQRARNSQPCVIFFDEIDALCPKRSS--LGDNNSSMRIVNQLLTEMDGFEGRGGVF 120
VR F++A+ + PC+IF DEIDA+ +R + G ++ + +NQ+L EMDGFEG G+
Sbjct: 93 VRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGII 152
Query: 121 LMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDKI 180
++AATNRPD++DPA++RPGRFDR + V LP+ + R++IL + + P + D+D I
Sbjct: 153 VIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMR--RVP-LAPDIDAAII 209
Query: 181 AADERCEGFSGADLEQLVKEA 201
A GFSGADL LV EA
Sbjct: 210 A--RGTPGFSGADLANLVNEA 228
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 218 bits (558), Expect = 1e-67
Identities = 92/201 (45%), Positives = 129/201 (64%), Gaps = 8/201 (3%)
Query: 3 PVKYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERA 62
P ++ ++ + P GVLL GPPG GKT LA+AVA EA + FI+ G + + M++G
Sbjct: 62 PSRFHEMGAR-IPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAAR 120
Query: 63 VRQCFQRARNSQPCVIFFDEIDALCPKRSS--LGDNNSSMRIVNQLLTEMDGFEGRGGVF 120
VR F+ A+ PC++F DEIDA+ KR S G N+ + +NQLL EMDGFE +
Sbjct: 121 VRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIV 180
Query: 121 LMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDKI 180
+MAATNRPDI+DPA++RPGRFDR + ++ P+ + R++IL + P + EDVD +
Sbjct: 181 VMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKP-LAEDVDLALL 237
Query: 181 AADERCEGFSGADLEQLVKEA 201
A +R GF GADLE L+ EA
Sbjct: 238 A--KRTPGFVGADLENLLNEA 256
>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 = 217 bits (555), Expect = 3e-67
Identities = 90/203 (44%), Positives = 120/203 (59%), Gaps = 10/203 (4%)
Query: 3 PVKYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERA 62
P +Y L K P GVLL GPPG GKTLLAKAVA EA + F S+ G + M++G
Sbjct: 33 PERYANLGAK-IPKGVLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASR 91
Query: 63 VRQCFQRARNSQPCVIFFDEIDALCPKRSSL---GDNNSSMRIVNQLLTEMDGFE-GRGG 118
VR F+ A+ P +IF DEIDA+ R++ N+ + +NQLL EMDGF
Sbjct: 92 VRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEMDGFGSENAP 151
Query: 119 VFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFD 178
V ++AATNRP+I+DPA+MRPGRFDR + V+ P+ R EIL K K + DV+
Sbjct: 152 VIVLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVK---LANDVNLQ 208
Query: 179 KIAADERCEGFSGADLEQLVKEA 201
++A G +GADL ++ EA
Sbjct: 209 EVAK--LTAGLAGADLANIINEA 229
>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 = 217 bits (554), Expect = 1e-64
Identities = 93/202 (46%), Positives = 131/202 (64%), Gaps = 10/202 (4%)
Query: 3 PVKYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERA 62
P K+ ++ + P G+LL GPPG GKTLLA+AVA EA + F + G + + +++G
Sbjct: 38 PSKFNRIGAR-MPKGILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVGAAR 96
Query: 63 VRQCFQRARNSQPCVIFFDEIDALCPKRSS-LGDNNSSMR--IVNQLLTEMDGFEGRGGV 119
VR F +A+ PC++F DEIDA+ R + LG + R +NQLL EMDGF+ + G+
Sbjct: 97 VRDLFAQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDE-REQTLNQLLVEMDGFDSKEGI 155
Query: 120 FLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDK 179
+MAATNRPDI+DPA++RPGRFD+ + V+ P+ RK+IL T+ P + EDV+ +
Sbjct: 156 IVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTR--NKP-LAEDVNLEI 212
Query: 180 IAADERCEGFSGADLEQLVKEA 201
IA +R GF GADLE LV EA
Sbjct: 213 IA--KRTPGFVGADLENLVNEA 232
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 217 bits (554), Expect = 2e-64
Identities = 93/202 (46%), Positives = 129/202 (63%), Gaps = 10/202 (4%)
Query: 3 PVKYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERA 62
P ++ ++ + P GVLL GPPG GKT LA+AVA EA + FI+ G + + M++G
Sbjct: 53 PSRFHEMGAR-IPKGVLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAAR 111
Query: 63 VRQCFQRARNSQPCVIFFDEIDALCPKRSS-LGDNNSSMR--IVNQLLTEMDGFEGRGGV 119
VR F+ A+ PC++F DEIDA+ KR S +G N R +NQLL EMDGFE +
Sbjct: 112 VRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDE-REQTLNQLLVEMDGFEKDTAI 170
Query: 120 FLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDK 179
+MAATNRPDI+DPA++RPGRFDR + ++ P+ + R++IL + P + EDVD
Sbjct: 171 VVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHAR--GKP-LAEDVDLAL 227
Query: 180 IAADERCEGFSGADLEQLVKEA 201
+A +R GF GADLE L+ EA
Sbjct: 228 LA--KRTPGFVGADLENLLNEA 247
>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 = 201 bits (513), Expect = 4e-61
Identities = 47/211 (22%), Positives = 87/211 (41%), Gaps = 12/211 (5%)
Query: 1 MFPVKYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESE 60
V+ K ++ VLL GPP GKT LA +A E+ FI + P+ + + ++
Sbjct: 50 ELLVQQTKNSDRTPLVSVLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAK 109
Query: 61 -RAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRG-G 118
+A+++ F A SQ + D+I+ L S ++ LL + +G
Sbjct: 110 CQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPR--FSNLVLQALLVLLKKAPPQGRK 167
Query: 119 VFLMAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFD 178
+ ++ T+R D++ + F + V PN +++L AL +D +
Sbjct: 168 LLIIGTTSRKDVLQ-EMEMLNAFSTTIHV--PNIATGEQLLEALELL----GNFKDKERT 220
Query: 179 KIAAD-ERCEGFSGADLEQLVKEAREQAILE 208
IA + + + G ++ E Q E
Sbjct: 221 TIAQQVKGKKVWIGIKKLLMLIEMSLQMDPE 251
>3nks_A Protoporphyrinogen oxidase; FAD containing protein, PPO, variegate
porphyria disease, VP oxidoreductase-oxidoreductase
inhibitor complex; HET: ACJ FAD; 1.90A {Homo sapiens}
Length = 477
Score = 198 bits (505), Expect = 1e-57
Identities = 98/285 (34%), Positives = 144/285 (50%), Gaps = 8/285 (2%)
Query: 255 SLKQRYTTPGAIKEMMSKRPDLSGYEESELYRRSRIEKWSVWSVEGGLQTIVNTLGEHLS 314
SL Q T +I + + +S L R++ E+WS WS+ GGL+ + L HL+
Sbjct: 186 SLFQAEQTHRSILLGLLLGAGRTPQPDSALIRQALAERWSQWSLRGGLEMLPQALETHLT 245
Query: 315 NK-VEVKMDTTCTNLEFLEKGVKVTLNNDQHIEANHVVSALPAPKLGMLLHKQHPTLGNL 373
++ V V L +G D +EA+HV+SA+PA L LL + L
Sbjct: 246 SRGVSVLRGQPVCGLSLQAEGRWKVSLRDSSLEADHVISAIPASVLSELLPAEAAPLARA 305
Query: 374 LSSIEHVNVAVINLAYENIPMKQNAFGFLVPPREKLPILGVVFDSCCFEQADW----TIL 429
LS+I V+VAV+NL Y+ + FG LVP E +LG+V+DS F + D +
Sbjct: 306 LSAITAVSVAVVNLQYQGAHLPVQGFGHLVPSSEDPGVLGIVYDSVAFPEQDGSPPGLRV 365
Query: 430 TVMMGGAWYDTYFK---GQSKEYILDIACRYVHEILDMPRTPHAQHVEILKACIPQYTLG 486
TVM+GG+W T S+E A L + P V + K CIPQYTLG
Sbjct: 366 TVMLGGSWLQTLEASGCVLSQELFQQRAQEAAATQLGLKEMPSHCLVHLHKNCIPQYTLG 425
Query: 487 HAARVKDIQGYIDTHQLPLYLTGSSYDGVGVNDVIALSKKAVESI 531
H +++ + ++ H+LPL L G+SY+GV VND I ++A S+
Sbjct: 426 HWQKLESARQFLTAHRLPLTLAGASYEGVAVNDCIESGRQAAVSV 470
>3i6d_A Protoporphyrinogen oxidase; protein-inhibitor complex, cytoplasm,
FAD, flavoprotein, oxidoreductase, porphyrin
biosynthesis; HET: FAD ACJ; 2.90A {Bacillus subtilis}
Length = 470
Score = 194 bits (493), Expect = 6e-56
Identities = 52/258 (20%), Positives = 111/258 (43%), Gaps = 9/258 (3%)
Query: 279 YEESELYRRSRIEKWSVWSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKVT 338
+ + + ++ ++ GLQT+V + + L +V T T L +
Sbjct: 211 RPQGSGQQLTAKKQGQFQTLSTGLQTLVEEIEKQLKL-TKVYKGTKVTKLSHSGSCYSLE 269
Query: 339 LNNDQHIEANHVVSALPAPKLGMLLHKQHPTLGNLLSSIEHVNVAVINLAY--ENIPMKQ 396
L+N ++A+ V+ P +L + + L ++ +VA + L + ++ M+
Sbjct: 270 LDNGVTLDADSVIVTAPHKAAAGMLSELPAI--SHLKNMHSTSVANVALGFPEGSVQMEH 327
Query: 397 NAFGFLVPPREKLPILGVVFDSCCFEQ---ADWTILTVMMGGAWYDTYFKGQSKEYILDI 453
GF++ I + + + T+L +G A ++ S I++I
Sbjct: 328 EGTGFVISRNSDFAITACTWTNKKWPHAAPEGKTLLRAYVGKAGDESIV-DLSDNDIINI 386
Query: 454 ACRYVHEILDMPRTPHAQHVEILKACIPQYTLGHAARVKDIQGYIDTHQLPLYLTGSSYD 513
+ +++++ P V +PQY +GH R+K+++ + + +Y+TG+S++
Sbjct: 387 VLEDLKKVMNINGEPEMTCVTRWHESMPQYHVGHKQRIKELREALASAYPGVYMTGASFE 446
Query: 514 GVGVNDVIALSKKAVESI 531
GVG+ D I K AV
Sbjct: 447 GVGIPDCIDQGKAAVSDA 464
>2ivd_A PPO, PPOX, protoporphyrinogen oxidase; porphyrin biosynthesis,
chlorophyll biosynthesis, oxidoreductase, HAEM
biosynthesis, heme biosynthesis; HET: ACJ FAD TWN; 2.3A
{Myxococcus xanthus} SCOP: c.3.1.2 d.16.1.5 PDB: 2ive_A*
Length = 478
Score = 188 bits (478), Expect = 8e-54
Identities = 64/275 (23%), Positives = 116/275 (42%), Gaps = 17/275 (6%)
Query: 264 GAIKEMMSKRPDLSGYEESELYRRSRIEKWSVWSVEGGLQTIVNTLGEHLSNKVEVKMDT 323
GAI+ ++R + + ++ + +GGLQ +++ L L +
Sbjct: 205 GAIRAQKAQRQA------ALPAGTAPKLSGALSTFDGGLQVLIDALAASL--GDAAHVGA 256
Query: 324 TCTNLEFLEKGVKVTLNND---QHIEANHVVSALPAPKLGMLLHKQHPTLGNLLSSIEHV 380
L + G ++ + + VV A PA LL L L++ I +
Sbjct: 257 RVEGLAREDGGWRLIIEEHGRRAELSVAQVVLAAPAHATAKLLRPLDDALAALVAGIAYA 316
Query: 381 NVAVINLAYENIPMKQ-NAFGFLVPPREKLPILGVVFDSCCFEQ---ADWTILTVMMGGA 436
+AV++L ++ + + FGFLVP E+ +LG + S F + + M+GGA
Sbjct: 317 PIAVVHLGFDAGTLPAPDGFGFLVPAEEQRRMLGAIHASTTFPFRAEGGRVLYSCMVGGA 376
Query: 437 WYDTYFKGQSKEYILDIACRYVHEILDMPRTPHAQHVEILKACIPQYTLGHAARVKDIQG 496
+ Q ++ + +A + + + P V IPQY LGH RV I
Sbjct: 377 RQPGLVE-QDEDALAALAREELKALAGVTARPSFTRVFRWPLGIPQYNLGHLERVAAIDA 435
Query: 497 YIDTHQLPLYLTGSSYDGVGVNDVIALSKKAVESI 531
+ L+L G++Y GVG+ND I + + +++
Sbjct: 436 ALQRLP-GLHLIGNAYKGVGLNDCIRNAAQLADAL 469
>3lov_A Protoporphyrinogen oxidase; structural genomics, JO center for
structural genomics, JCSG, protein structure INI PSI-2;
HET: FAD; 2.06A {Exiguobacterium sibiricum}
Length = 475
Score = 179 bits (455), Expect = 1e-50
Identities = 58/279 (20%), Positives = 117/279 (41%), Gaps = 11/279 (3%)
Query: 256 LKQRYTTPGAIKEMMSKRPDLSGYEESELYRRSRIEKWSVWSVEGGLQTIVNTLGEHLSN 315
G++ E M L + + + + S+E GL++++ L E L
Sbjct: 191 FVANEQKAGSLFEGMRLMRPLD--QLPQTPQTTIKATGQFLSLETGLESLIERLEEVLE- 247
Query: 316 KVEVKMDTTCTNLEFLEKGVKVTLNNDQHIEANHVVSALPAPKLGMLLHKQHPTLGNLLS 375
+ E++++T + + ++ ++ A++V+ +P P++ LL H L
Sbjct: 248 RSEIRLETPLLAISREDGRYRLKTDH-GPEYADYVLLTIPHPQVVQLLPDAHLPE---LE 303
Query: 376 SIEHVNVAVINLAY-ENIPMKQNAFGFLVPPREKLPILGVVFDSCCFEQA--DWTILTVM 432
+ + A + + + + + GF+V R I + + D T+L
Sbjct: 304 QLTTHSTATVTMIFDQQQSLPIEGTGFVVNRRAPYSITACTAIDQKWNHSAPDHTVLRAF 363
Query: 433 MGGAWYDTYFKGQSKEYILDIACRYVHEILDMPRTPHAQHVEILKACIPQYTLGHAARVK 492
+G D +S E + + + +I P + L +P YT+GHA R++
Sbjct: 364 VGRPGNDHLVH-ESDEVLQQAVLQDLEKICGRTLEPKQVIISRLMDGLPAYTVGHADRIQ 422
Query: 493 DIQGYIDTHQLPLYLTGSSYDGVGVNDVIALSKKAVESI 531
++ + +YL G +YDGVG+ D +A +K +ESI
Sbjct: 423 RVREEVLAQYPGIYLAGLAYDGVGLPDCVASAKTMIESI 461
>1sez_A Protoporphyrinogen oxidase, mitochondrial; FAD-binding,
para-hydroxy-benzoate-hydroxylase fold (PHBH- fold),
monotopic membrane-binding domain; HET: FAD OMN TON;
2.90A {Nicotiana tabacum} SCOP: c.3.1.2 d.16.1.5
Length = 504
Score = 169 bits (430), Expect = 8e-47
Identities = 50/291 (17%), Positives = 109/291 (37%), Gaps = 28/291 (9%)
Query: 263 PGAIKEMMSKRPDLSGYEESELYRRSRIEKWSVWSVEGGLQTIVNTLGEHLSNKVEVKMD 322
GAI+ +S + + ++ + +S GG+QT+ + + + L + E++++
Sbjct: 205 LGAIRSKLSPKN--EKKQGPPKTSANKKRQRGSFSFLGGMQTLTDAICKDLR-EDELRLN 261
Query: 323 TTCTNLEFLEKGVKV-----------TLNNDQHIEANHVVSALPAPKLGMLLH--KQHPT 369
+ L + + V+ P + + + +P
Sbjct: 262 SRVLELSCSCTEDSAIDSWSIISASPHKRQSEEESFDAVIMTAPLCDVKSMKIAKRGNPF 321
Query: 370 LGNLLSSIEHVNVAVINLAY--ENIPMKQNAFGFLVPPREK---LPILGVVFDSCCFEQ- 423
L N + +++V ++V+ + EN+ FG LVP +E+ L LG +F S F
Sbjct: 322 LLNFIPEVDYVPLSVVITTFKRENVKYPLEGFGVLVPSKEQQHGLKTLGTLFSSMMFPDR 381
Query: 424 --ADWTILTVMMGGAWYDTYFKGQSKEYILDIACRYVHEILDMPRTPHAQHVEILKACIP 481
+ + T +GG+ S+ + +I + ++L P + P
Sbjct: 382 APNNVYLYTTFVGGSRNRELA-KASRTELKEIVTSDLKQLLGAEGEPTYVNHLYWSKAFP 440
Query: 482 QYTLGHAARVKDIQGYIDTHQLP-LYLTGSSYDGVGVNDVIALSKKAVESI 531
Y + + + I LP L+ G+ G+ V ++ A + +
Sbjct: 441 LYGHNYDSVLDAIDKME--KNLPGLFYAGNHRGGLSVGKALSSGCNAADLV 489
>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 = 85.4 bits (211), Expect = 6e-18
Identities = 59/262 (22%), Positives = 100/262 (38%), Gaps = 43/262 (16%)
Query: 11 GKSTPSGVLLCGPPGCGKTLLAKAVANEAG--INFISVKGPELLNMYLGESERAVRQCFQ 68
K VLL GPPG GKT LA A+A E G + F + G E+ + + ++E + + F+
Sbjct: 59 KKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEV-LMENFR 117
Query: 69 RA---RNSQPCVIFFDEIDALCPKRS--------------SLGDNNSSM--------RIV 103
RA R + ++ E+ L P + +G + I
Sbjct: 118 RAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIF 177
Query: 104 NQLLTEMDGFEGRGGVFLMAATNRPDIIDPAVMRPGRFDRIL--FVNLPNE--QDRKEIL 159
L E E +++ A + FD +V LP +KEI+
Sbjct: 178 ESLQKE--RVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEII 235
Query: 160 LALTKQGKD-----PMMGEDV--DFDKIAADERCEGFSG--ADLEQLVKEAREQAILEIV 210
+T D P G+D+ ++ ++ E ++ ++V + +Q I E+V
Sbjct: 236 QDVTLHDLDVANARPQGGQDILSMMGQLMKPKKTEITDKLRGEINKVVNKYIDQGIAELV 295
Query: 211 NSVENDDQAGIDDTEQVTIGFR 232
V D+ + D E T R
Sbjct: 296 PGVLFVDEVHMLDIECFTYLHR 317
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 82.1 bits (202), Expect = 2e-17
Identities = 43/238 (18%), Positives = 78/238 (32%), Gaps = 28/238 (11%)
Query: 8 KLFGKSTPSGVL---LCGPPGCGKTLLAKAVAN---EAGI----NFISVKGPELLNMYLG 57
+ G + + L G PG GKT +A +A G + +SV +L+ Y+G
Sbjct: 57 QKLGLAHETPTLHMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIG 116
Query: 58 ESERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRG 117
+ ++ +RA V+F DE L + + + LL M+
Sbjct: 117 HTAPKTKEVLKRAM---GGVLFIDEAYYLYRPD---NERDYGQEAIEILLQVMENNRDDL 170
Query: 118 GVFLMAATNRPDIIDPAVMRPG---RFDRILFVNLPNEQDRKEILLALTKQGKDPMMGED 174
V L +R + + PG R + ++++ EI + M E
Sbjct: 171 VVILAGYADRME--NFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEA 228
Query: 175 VDFDK--IAADERCEGFS-GADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVTI 229
+ I F+ + + AR + + +D TI
Sbjct: 229 ETALRAYIGLRRNQPHFANARSIRNALDRARLRQANRLF----TASSGPLDARALSTI 282
>4dsg_A UDP-galactopyranose mutase; rossmann fold, flavin adenine
dinucleotide, isomerase; HET: FAD UDP; 2.25A
{Trypanosoma cruzi} PDB: 4dsh_A*
Length = 484
Score = 80.3 bits (197), Expect = 3e-16
Identities = 31/246 (12%), Positives = 77/246 (31%), Gaps = 13/246 (5%)
Query: 296 WSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKVTLNNDQHIEANHVVSALP 355
+ GG I + E L ++ ++ ++ + +T +N + + ++++S +P
Sbjct: 209 FPQRGGTGIIYQAIKEKLPSE-KLTFNSGFQAIAIDADAKTITFSNGEVVSYDYLISTVP 267
Query: 356 APKL----GMLLHKQHPTLGNLLSSIEHVNVAVINLAYENIPMKQNAFGF-LVPPREKLP 410
L K + + + + + VI + + P L P + P
Sbjct: 268 FDNLLRMTKGTGFKGYDEWPAIADKMVYSSTNVIGIGVKGTPPPHLKTACWLYFPEDTSP 327
Query: 411 ILGVVFDSCCFEQADWTILTVMMGGAWYDTYFKGQSKEYILDIACRYVHEILDMPR-TPH 469
S + +M Y I D + L +P
Sbjct: 328 FYRATVFSNYSKYNVPEGHWSLMLEVSESKYKPVNHSTLIEDCIVGCLASNLLLPEDLLV 387
Query: 470 AQHVEILKACIPQYTLGHAARVKDIQGYIDTHQLPLYLTGSS----YDGVGVNDVIALSK 525
++ ++ P +G ++ Q + + +Y G Y+ +
Sbjct: 388 SKWHYRIEKGYPTPFIGRNNLLEKAQPELMSRC--IYSRGRFGAWRYEVGNQDHSFMQGV 445
Query: 526 KAVESI 531
+A++ +
Sbjct: 446 EAIDHV 451
>3utf_A UDP-galactopyranose mutase; nucleotide binding, flavin adenine
dinucleotide BIND isomerase; HET: FDA; 2.25A
{Aspergillus fumigatus} PDB: 3ute_A* 3utg_A* 3uth_A*
3ukh_A* 3ukf_A* 3uka_A* 3ukl_A* 3ukk_A* 3ukq_A* 3ukp_A*
Length = 513
Score = 72.2 bits (176), Expect = 1e-13
Identities = 34/277 (12%), Positives = 71/277 (25%), Gaps = 35/277 (12%)
Query: 285 YRRSRIEKWSVWSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKVTLNNDQH 344
+ GG I + L + + + VTL +
Sbjct: 204 AGNWGPNATFRFPARGGTGGIWIAVANTLPKEK-TRFGEKGKVTKVNANNKTVTLQDGTT 262
Query: 345 IEANHVVSALPAPKLGMLLHKQHPTLGNLLSSIEHVNVAVINLAYENIPMKQ-------- 396
I +VS + L ++ L L + + + VI + ++
Sbjct: 263 IGYKKLVSTMAVDFLAEAMN--DQELVGLTKQLFYSSTHVIGVGVRGSRPERIGDKCWLY 320
Query: 397 ---------------NAFGFLVPPREKLPILGVVFD-SCCFEQADWTILTVMMGGAWYDT 440
N + P + D S + ++
Sbjct: 321 FPEDNCPFYRATIFSNYSPYNQPEASAALPTMQLADGSRPQSTEAKEGPYWSIMLEVSES 380
Query: 441 YFKGQSKEYILDIACRYVHEILDMPRT--PHAQHVEILKACIPQYTLGHAARVKDIQGYI 498
K ++E IL + + + T + + P TL + I +
Sbjct: 381 SMKPVNQETILADCIQGLVNTEMLKPTDEIVSTYHRRFDHGYPTPTLEREGTLTQILPKL 440
Query: 499 DTHQLPLYLTGS----SYDGVGVNDVIALSKKAVESI 531
++ G Y+ + L +AV++I
Sbjct: 441 QDKD--IWSRGRFGSWRYEVGNQDHSFMLGVEAVDNI 475
>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 = 67.6 bits (164), Expect = 5e-12
Identities = 73/471 (15%), Positives = 133/471 (28%), Gaps = 140/471 (29%)
Query: 16 SGVLLCGPPGCGKTLLAKAVANEAG-----------INFISVKGPE-----LLNMYLGES 59
VL+ G G GKT +A V +N + PE L +
Sbjct: 151 KNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQID 210
Query: 60 ERAVRQCFQRARNSQPCVIFFDEIDALC---PKRSSLG--DNNSSMRIVNQ-------LL 107
+ + E+ L P + L N + + N LL
Sbjct: 211 PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILL 270
Query: 108 TEMDGFEGRGGV--FLMAATNRPDIID--PAVMRPGRFDRIL--FVNLPNEQDRKEIL-- 159
T V FL AAT +D + P +L +++ + +E+L
Sbjct: 271 TTRF-----KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325
Query: 160 --LALTKQGKDPMMGE-------------DVDFDKIA-ADERCEGFSGADLEQLV-KEAR 202
L+ ++ E V+ DK+ E L L E R
Sbjct: 326 NPRRLS------IIAESIRDGLATWDNWKHVNCDKLTTIIESS-------LNVLEPAEYR 372
Query: 203 EQ----AI-----------LEIV--NSVENDDQAGIDDTEQVTIGFRHFDIALKRIKPSV 245
+ ++ L ++ + +++D + K K S+
Sbjct: 373 KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM----------------VVVNKLHKYSL 416
Query: 246 SKADCKNYESLKQRYTTPGAIKEMMSKRPDLSGYEES--ELYRRSRIEKWSVWSVEGGLQ 303
+ K + P E+ K + S + Y + Q
Sbjct: 417 VEKQPKES-----TISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQ 471
Query: 304 TIVNTLGEHLSNKVEVKMDTTCT----NLEFLEKGVKVT---------LNND-------- 342
+ +G HL N + T + FLE+ ++ + N
Sbjct: 472 YFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYK 531
Query: 343 QHIEANHVVSALPAPKLGMLLH--KQHPTLGNLLSSIEHVNVAVINLAYEN 391
+I N + +L + NL+ S ++ ++ I L E+
Sbjct: 532 PYICDND---PKYERLVNAILDFLPKIEE--NLICS-KYTDLLRIALMAED 576
Score = 49.1 bits (116), Expect = 4e-06
Identities = 63/377 (16%), Positives = 106/377 (28%), Gaps = 100/377 (26%)
Query: 223 DTEQVTIGFRHFDIALKRIKPSVSKADCKNYESLKQRYTTPGAIKEMMSKRPDLSGYEES 282
D E +++ DI V DCK+ + + + + I ++ D S
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHII-MSKD----AVS 62
Query: 283 ELYR-----RSRIEKWSVWSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKV 337
R S+ E+ VE L+ L + + T +E ++
Sbjct: 63 GTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR---- 118
Query: 338 TLNNDQHIEANHVVS----------AL----PAPKL---GML-LHKQHPTL-GNLLSSIE 378
L ND + A + VS AL PA + G+L K + ++ S +
Sbjct: 119 -LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT--WVALDVCLSYK 175
Query: 379 HV-----NVAVINLAYENIP-----MKQNAFGFLVPPREKLPILGVVFDSCCFEQADWTI 428
+ +NL N P M Q + P + +
Sbjct: 176 VQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS-----------DHSSNIK 224
Query: 429 LTVMMGGAWYDTYFKGQSKEY-----ILD------------IACR--------YVHEILD 463
L + A K SK Y +L ++C+ V + L
Sbjct: 225 LRIHSIQAELRRLLK--SKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLS 282
Query: 464 MPRTPHAQHVEILKACIPQYTLGHAARVKDIQGYIDTHQLPLYLTGSSYDGVGVN----D 519
T H P + D LP + + N
Sbjct: 283 AATTTHISLDHHSMTLTPDEVKSLLLKYLD----CRPQDLPR-------EVLTTNPRRLS 331
Query: 520 VIALSKKAVESIKWQHW 536
+IA S + W +W
Sbjct: 332 IIAESIR-DGLATWDNW 347
Score = 48.7 bits (115), Expect = 4e-06
Identities = 60/442 (13%), Positives = 131/442 (29%), Gaps = 133/442 (30%)
Query: 146 FVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVKE--ARE 203
FV + K ++ + + + P M ++ ++R ++ D + K +R
Sbjct: 82 FVEEVLRINYKFLMSPIKTEQRQPSMMT-----RMYIEQRDRLYN--DNQVFAKYNVSRL 134
Query: 204 QAILEIVNSVENDDQAGIDDTEQVTI----GFRHFDIALKRIKPSVSKADCKNYESLKQ- 258
Q L++ ++ A V I G K V+ C +Y+ +
Sbjct: 135 QPYLKLRQALLELRPAKN-----VLIDGVLGSG---------KTWVALDVCLSYKVQCKM 180
Query: 259 ----------RYTTPGAIKEMMSK-----------RPD---------------LSGYEES 282
+P + EM+ K R D L +S
Sbjct: 181 DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKS 240
Query: 283 ELYRRSRI---EKWSVWSVE---GGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVK 336
+ Y + + + + ++ T + +++ + TT +L+
Sbjct: 241 KPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAAT-TTHISLDHHSMT-- 297
Query: 337 VTLNNDQHIE-----ANHVVSALP------AP-KLGML--LHKQHPTLGNLLSSIEHVNV 382
L D+ + LP P +L ++ + + +HVN
Sbjct: 298 --LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGL---ATWDNWKHVNC 352
Query: 383 ----AVINLAYENIP---MKQNAFGFLV-PPREKLP--ILGVVFDSCCFEQADWTILT-- 430
+I + + ++ V PP +P +L ++ W +
Sbjct: 353 DKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLI----------WFDVIKS 402
Query: 431 ---VMMGGAWYDTYFKGQSKE---YILDIACRYVHEILDMPRTPHAQHVEILKACIPQYT 484
V++ + + Q KE I I ++ + A H ++ + Y
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEY----ALH----RSIVDHYN 454
Query: 485 LGHAARVKDIQ-----GYIDTH 501
+ D+ Y +H
Sbjct: 455 IPKTFDSDDLIPPYLDQYFYSH 476
>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 = 59.5 bits (144), Expect = 1e-09
Identities = 49/265 (18%), Positives = 83/265 (31%), Gaps = 53/265 (20%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFI----S-VKGPELLNMYLGES-------ERAVRQ 65
+L GPPG GKT A VA E G + + S V+ LLN + +
Sbjct: 80 AMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHN 139
Query: 66 CFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGGVFLMAAT 125
+ N + VI DE+D + S GD ++ T
Sbjct: 140 EEAQNLNGKHFVIIMDEVDGM-----SGGDRGGVGQLAQ----------------FCRKT 178
Query: 126 NRP------DIIDPAVMRP--GRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDF 177
+ P + P MRP I F + ++ + E
Sbjct: 179 STPLILICNERNLPK-MRPFDRVCLDIQFRRPDANSIKSRLMTIAIR--------EKFKL 229
Query: 178 DKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVTIGFRHFDIA 237
D D + + D+ Q++ I ++ +++ I + I + FDIA
Sbjct: 230 DPNVIDRLIQT-TRGDIRQVINLL--STISTTTKTINHENINEISKAWEKNIALKPFDIA 286
Query: 238 LKRIKPSVSKADCKNYESLKQRYTT 262
K + + +L +
Sbjct: 287 HKMLDGQIYSDIGSRNFTLNDKIAL 311
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 53.7 bits (130), Expect = 2e-09
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 7/56 (12%)
Query: 147 VNLPNEQDRKEILLALTKQGKDPM-MGEDVDFDKIAADERCEGFSGADLEQLVKEA 201
+ PNE+ R +IL ++ M + ++ KIA E G SGA+++ + EA
Sbjct: 8 HSHPNEEARLDILKIHSR----KMNLTRGINLRKIA--ELMPGASGAEVKGVCTEA 57
>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 = 52.5 bits (127), Expect = 4e-09
Identities = 17/54 (31%), Positives = 28/54 (51%), Gaps = 7/54 (12%)
Query: 149 LPNEQDRKEILLALTKQGKDPM-MGEDVDFDKIAADERCEGFSGADLEQLVKEA 201
PNE+ R +IL ++ M + ++ KIA E G SGA+++ + EA
Sbjct: 2 PPNEEARLDILKIHSR----KMNLTRGINLRKIA--ELMPGASGAEVKGVCTEA 49
>3nrn_A Uncharacterized protein PF1083; alpha-beta protein, structural
genomics, PSI-2, protein STRU initiative; HET: AMP;
2.10A {Pyrococcus furiosus}
Length = 421
Score = 52.4 bits (126), Expect = 2e-07
Identities = 37/264 (14%), Positives = 84/264 (31%), Gaps = 35/264 (13%)
Query: 285 YRRSRIEKWSVWSVEGGLQTIVNTLGEHL-SNKVEVKMDTTCTNLEFLEKGVKVTLNNDQ 343
R+ + + GG + +++ L + NK ++ + +E+ KV +++
Sbjct: 171 EIRAALRWGGPGLIRGGCKAVIDELERIIMENKGKILTRKEVVEIN-IEEK-KVYTRDNE 228
Query: 344 HIEANHVVSALPAPKLGMLLHKQH--PTLGNLLSSIEHVNVAVINLAYENIPMKQNAFGF 401
+ +S + + L+ + + + SIE NLA P N F
Sbjct: 229 EYSFDVAISNVGVRETVKLIGRDYFDRDYLKQVDSIEPSEGIKFNLAVPGEPRIGNTIVF 288
Query: 402 LVPPREKLPILGVVFDSC-CFEQA--DWTILTVMMGGAWYDTYFKGQSKEYILDIACRYV 458
L I G S A +T++ M + K ++ ++ +
Sbjct: 289 T----PGLMINGFNEPSALDKSLAREGYTLIMAHMALKNGN--VKKAIEKGWEELLEIFP 342
Query: 459 HEILDMPRTPHAQHVEILKACIPQYTLGHAARVKDIQGYIDTHQLPLYLTGSSY---DGV 515
+ + + I+ ++ + + G Y G+
Sbjct: 343 EGEPLLAQVYR-----------DGNPVNRTRAGLHIEWPLNE----VLVVGDGYRPPGGI 387
Query: 516 GVNDVIALSKKAVESIK---WQHW 536
V+ + KA+E + + W
Sbjct: 388 EVDGIALGVMKALEKLNLGSFSEW 411
>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 = 53.1 bits (127), Expect = 2e-07
Identities = 85/540 (15%), Positives = 159/540 (29%), Gaps = 184/540 (34%)
Query: 131 IDPAVMRP-----GRFDRILFVNLPN------EQDRKEILLALTKQGKDPMMGEDVDFDK 179
+D RP G + +L V P Q +++ L +P G D +
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLV--PTASFFIASQLQEQFNKILP----EPTEGFAADDEP 54
Query: 180 IAADE---RCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAGIDDTEQVTIGFRHFDI 236
E + G+ + +E +Q + + EN G D I H +
Sbjct: 55 TTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND------I---H-AL 104
Query: 237 ALKRIKPSVSKADCKNYESLKQRYTTPGAIKEMMSKRPDLSGYEESELYRRSRIEKWSVW 296
A K + K E +K T +M+KRP S L+R +
Sbjct: 105 AAK-LLQENDTTLVKTKELIKNYITA-----RIMAKRP-FDKKSNSALFRAVGEGNAQLV 157
Query: 297 SVEGG----------LQTI-----------VNTLGEHLSNKVEVKMDTTCTNLEFLEKGV 335
++ GG L+ + + E LS + +D + +G+
Sbjct: 158 AIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAE----KVFTQGL 213
Query: 336 KVT--LNNDQHI-EANHVVSALPA--PKLGM--LLH--------KQHPTLGNLLSSI--- 377
+ L N + + ++++S P P +G+ L H P G L S +
Sbjct: 214 NILEWLENPSNTPDKDYLLSI-PISCPLIGVIQLAHYVVTAKLLGFTP--GELRSYLKGA 270
Query: 378 ----EHVNVAVINLA--------YENIP--MK---------QNAFGFL-VPPR------- 406
+ + AV +A + ++ + A+ +PP
Sbjct: 271 TGHSQGLVTAVA-IAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLE 329
Query: 407 --EKLP--ILGVVFDSCCFEQADWTILTVMMGGAWYDTYFKGQSKEYI------------ 450
E +P +L + + EQ + +++ + I
Sbjct: 330 NNEGVPSPMLSIS--NLTQEQVQDYVNKT-------NSHLPAGKQVEISLVNGAKNLVVS 380
Query: 451 -----LDIACRYVHEI-----LDMPRTPHAQ----------------HVEILKACIPQYT 484
L + + LD R P ++ H +L
Sbjct: 381 GPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDL-- 438
Query: 485 LGHAARVKDIQGYIDTHQL--PLYLTGSSYDGVGVNDVIALSKKAVESIKWQ------HW 536
+ ++ + + P+Y T +DG +D+ LS E I W
Sbjct: 439 INKDLVKNNVS--FNAKDIQIPVYDT---FDG---SDLRVLSGSISERIVDCIIRLPVKW 490
Score = 47.4 bits (112), Expect = 1e-05
Identities = 48/300 (16%), Positives = 91/300 (30%), Gaps = 86/300 (28%)
Query: 24 PGCGKTL-----LAKAVANEAGINFISVKG-----------PELLNMYLGESERAVRQ-- 65
G G L A+ V N A +F G L + GE + +R+
Sbjct: 1629 QGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENY 1688
Query: 66 ---CFQRARNSQP-CVIFFDEIDALCPKRSSLGDNNSSMRIVN-Q---LLTEM------- 110
F+ + + F EI+ + + Q L E
Sbjct: 1689 SAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLK 1748
Query: 111 -DGFEGRGGVF----------LMAATNRPDIIDPAV----MRPGRFDRILFVNLPNEQDR 155
G F L + + I V R G + R
Sbjct: 1749 SKGLIPADATFAGHSLGEYAALASLADVMSIES-LVEVVFYR-GMT-------MQVAVPR 1799
Query: 156 KEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVKEAREQA--ILEIVNSV 213
E L + G M+ ++ ++AA FS L+ +V+ ++ ++EIV
Sbjct: 1800 DE--LGRSNYG---MIA--INPGRVAA-----SFSQEALQYVVERVGKRTGWLVEIV--- 1844
Query: 214 ENDDQAGIDDTEQVTI-GFRHFDI-ALKRIKPSVSKADCKNYESLK-QRYTTPGAIKEMM 270
N + +Q G D+ AL + ++ + + ++ Q+ + ++ +
Sbjct: 1845 -NYNVEN----QQYVAAG----DLRALDTVTNVLNFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 47.0 bits (111), Expect = 1e-05
Identities = 96/556 (17%), Positives = 167/556 (30%), Gaps = 165/556 (29%)
Query: 49 PELLNMYLGESERAVRQCFQRARNSQPCV-IFFDEIDALCPKRSSLGDNN--SSMRIVNQ 105
EL+ +LG V + + + E + L N+ + + +
Sbjct: 58 AELVGKFLGYVSSLVEP--SKVGQFDQVLNLCLTEFE-----NCYLEGNDIHA---LAAK 107
Query: 106 LLTEMDGFEGRGGVFLMAATNRPDIIDPAVMRPGR--FDRILFVNLPNEQDRKEILLALT 163
LL E D ++I + + P ++ L
Sbjct: 108 LLQENDT----------TLVKTKELI--------KNYITARIMAKRPFDKKSNSALFRAV 149
Query: 164 KQGKDPMM------GEDVD-FD---------KIAADERCEGFSGADLEQLVKEARE---- 203
+G ++ G D F+ + + + FS L +L++ +
Sbjct: 150 GEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIK-FSAETLSELIRTTLDAEKV 208
Query: 204 -QAILEIVNSVENDDQAGIDD---TEQVT---IG---FRHFDIALKR--IKPS------- 244
L I+ +EN D + ++ IG H+ + K P
Sbjct: 209 FTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK 268
Query: 245 --------------VSKADCKNYESLKQRYTTPGAIKEMMSKRPDLSGYEESELYRRSRI 290
+++ D ++ES AI + G E Y + +
Sbjct: 269 GATGHSQGLVTAVAIAETD--SWESFFVSVRK--AITVLF-----FIGVRCYEAYPNTSL 319
Query: 291 E----KWSVWSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKVTLNNDQHIE 346
+ S+ + EG +++ +V+ ++ T ++L K V+++L N
Sbjct: 320 PPSILEDSLENNEGVPSPMLSISNLTQE-QVQDYVNKTNSHLP-AGKQVEISLVNGAK-- 375
Query: 347 ANHVVSALPAP--KLGMLLHKQHPTLGNLLSSIEHVNVAVINLAYENIPMKQNAFG---- 400
N VVS P L + L K G S I E N F
Sbjct: 376 -NLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS---------ERKLKFSNRFLPVAS 425
Query: 401 -----FLVPPREKLPILGVVFDSCCFEQADWTILTVMMGGAWYDTY-------FKGQSKE 448
LVP + + +V ++ F D I V YDT+ G E
Sbjct: 426 PFHSHLLVPASDLI-NKDLVKNNVSFNAKDIQI-PV------YDTFDGSDLRVLSGSISE 477
Query: 449 YILDIACRYVHEILDMPRTPH--AQHVEILKACIPQYTLGHAARVKDIQGYIDTHQLPLY 506
I+D R + T A H IL P G A+ +
Sbjct: 478 RIVDCIIR---LPVKWETTTQFKATH--IL-DFGP----GGASGLGV------------- 514
Query: 507 LTGSSYDGVGVNDVIA 522
LT + DG GV ++A
Sbjct: 515 LTHRNKDGTGVRVIVA 530
Score = 36.2 bits (83), Expect = 0.034
Identities = 64/405 (15%), Positives = 106/405 (26%), Gaps = 161/405 (39%)
Query: 3 PVKYP--------------KLFGKSTPSGVL--LCGPPGCGKTLLAKAVANEAGI---NF 43
P+ P KL G TP + L G G + L+ AVA +F
Sbjct: 235 PISCPLIGVIQLAHYVVTAKLLGF-TPGELRSYLKGATGHSQGLVT-AVAIAETDSWESF 292
Query: 44 --ISVKGPELLNMYLG-ESERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSM 100
K +L ++G A + + E + P S M
Sbjct: 293 FVSVRKAITVL-FFIGVRCYEAYPNTSLPPSILEDSL----ENNEGVP---------SPM 338
Query: 101 RIVNQLLTEMDGFEGRGGVFLMAATNRPDIIDPAVMRPGRFDRILFVN--LPNEQDRKEI 158
+ + + D + N LP + +
Sbjct: 339 LSI------------SN-------LTQEQVQ----------DYVNKTNSHLPAGKQ---V 366
Query: 159 LLALTKQGKDPMMGEDVDFDKIAADERCEGFSG--ADLEQLVKEAREQAILEIVNSVEND 216
++L G + V SG L L R+
Sbjct: 367 EISL-VNGAKNL----V-------------VSGPPQSLYGLNLTLRKAKA---------- 398
Query: 217 DQAGIDDTEQVTIGFRHFDIALKRIKPSVSKADCKNYESLKQRY---TTP-------GAI 266
+G+D Q I F +R K S R+ +P A
Sbjct: 399 -PSGLD---QSRIPFS------ER-KLKFSN-----------RFLPVASPFHSHLLVPAS 436
Query: 267 KEMMSKRPDLSGYEESELYRRSRIEKWSVWSVEGG--LQTIVNTLGEHLSNKVEVKMDTT 324
+ DL + + + I + V+ G L+ + ++ E + V
Sbjct: 437 DLINK---DLV--KNNVSFNAKDI-QIPVYDTFDGSDLRVLSGSISERI-----VDCIIR 485
Query: 325 -CTNLEFLEKGVKVTLNNDQHIEANHVVSALP--APKLGMLLHKQ 366
E T +A H++ P A LG+L H+
Sbjct: 486 LPVKWE------TTT-----QFKATHILDFGPGGASGLGVLTHRN 519
Score = 35.8 bits (82), Expect = 0.039
Identities = 38/206 (18%), Positives = 58/206 (28%), Gaps = 61/206 (29%)
Query: 4 VKYPKLFGKSTPSGVLLC--GPPG-CGKT------LLAKAVA-NEAGINFISVKGPELLN 53
+K K+F + G T L A E + KG +
Sbjct: 1701 LKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFED----LKSKGLIPAD 1756
Query: 54 MY-----LGE-S-----------ERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDN 96
LGE + E V F R Q V R LG +
Sbjct: 1757 ATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAV-----------PRDELGRS 1805
Query: 97 NSSMRIVNQLLTEMDGFEGRGGVFLMAATNRPDIIDPAVMRPGRFDRILFVN--LPNEQD 154
N M +N GR + +++ R G I VN + N+Q
Sbjct: 1806 NYGMIAIN---------PGRVAASFSQEALQ-YVVERVGKRTGWLVEI--VNYNVENQQ- 1852
Query: 155 RKEILLALTKQGKDPMMGEDVDFDKI 180
+ A + D + ++F K+
Sbjct: 1853 ---YVAAGDLRALD-TVTNVLNFIKL 1874
Score = 29.2 bits (65), Expect = 5.1
Identities = 33/240 (13%), Positives = 65/240 (27%), Gaps = 87/240 (36%)
Query: 14 TPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERAVRQCFQ-RARN 72
+++ GPP ++L LN+ L +A Q R
Sbjct: 373 GAKNLVVSGPP---QSLYG-------------------LNLTL-RKAKAPSGLDQSRIPF 409
Query: 73 SQPCVIF---FDEIDALCPKRSSLGDNNSSMRIVNQLLTE---MDGFEGRGG-----VFL 121
S+ + F F + + P S L + + L+ + + V+
Sbjct: 410 SERKLKFSNRFLPVAS--PFHSHL------LVPASDLINKDLVKNNVSFNAKDIQIPVY- 460
Query: 122 MAATNRPDIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDKIA 181
D D + +R I + ++ V ++
Sbjct: 461 -------DTFDGSDLR---------------VLSGSISERIVDC----IIRLPVKWETTT 494
Query: 182 ADERCE-------GFSGADLEQLVKEAREQAILEIVNSVENDDQAG-IDDTEQVTIGFRH 233
+ G SG L L ++ + ++ AG +D GF+
Sbjct: 495 QFKATHILDFGPGGASG--LGVLTHRNKDGTGVRVI-------VAGTLDINPDDDYGFKQ 545
>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 = 46.5 bits (111), Expect = 5e-07
Identities = 16/68 (23%), Positives = 30/68 (44%), Gaps = 7/68 (10%)
Query: 151 NEQDRKEILLALTKQGKDPM-MGEDVDFDKIAADERCEGFSGADLEQLVKEAREQAILEI 209
+ + ++ I +T M + E+VD + R + SGAD+ + +E+ A+ E
Sbjct: 2 DRRQKRLIFSTITS----KMNLSEEVDLEDYV--ARPDKISGADINSICQESGMLAVREN 55
Query: 210 VNSVENDD 217
V D
Sbjct: 56 RYIVLAKD 63
>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 = 50.1 bits (119), Expect = 9e-07
Identities = 30/200 (15%), Positives = 56/200 (28%), Gaps = 43/200 (21%)
Query: 13 STPSGVLLCGPPGCGKTLLAKAVANE-----------AGINFISVKGPELLNMYL----- 56
L G G GKT ++K + NE + V E+
Sbjct: 43 EVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSS 102
Query: 57 -------------GESERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIV 103
G + + + +I+ DE+D L +R G + ++
Sbjct: 103 LAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRR---GGDIVLYQL- 158
Query: 104 NQLLTEMDGFEGRGGVFLMAATNRPDIIDPAVMR-PGRFDRILFVNLPNEQDRKEILLAL 162
+ ++ +N ++ D R + + + K IL
Sbjct: 159 ---------LRSDANISVIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKY 209
Query: 163 TKQGKDPMMGEDVDFDKIAA 182
+ G +D IAA
Sbjct: 210 AEYGLIKGTYDDEILSYIAA 229
>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 = 45.7 bits (109), Expect = 1e-06
Identities = 10/51 (19%), Positives = 21/51 (41%), Gaps = 5/51 (9%)
Query: 151 NEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVKEA 201
+ + R I +K + + ++ I+ C +GA+L + EA
Sbjct: 2 DLEGRANIFRIHSKSMS---VERGIRWELIS--RLCPNSTGAELRSVCTEA 47
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 49.8 bits (120), Expect = 1e-06
Identities = 24/100 (24%), Positives = 38/100 (38%), Gaps = 33/100 (33%)
Query: 8 KLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFIS-------VKGPELLNMYLGESE 60
+ ++L GPPG GKT LA+ +A A + VK
Sbjct: 43 RAIEAGHLHSMILWGPPGTGKTTLAEVIARYANADVERISAVTSGVK------------- 89
Query: 61 RAVRQCFQRARNS----QPCVIFFDEI--------DALCP 88
+R+ +RAR + + ++F DE+ DA P
Sbjct: 90 -EIREAIERARQNRNAGRRTILFVDEVHRFNKSQQDAFLP 128
>1s3e_A Amine oxidase [flavin-containing] B; human monoamine oxidase,
inhibitor binding, rasagiline, enantioselectivity,
oxidoreductase; HET: FAD RHP; 1.60A {Homo sapiens} SCOP:
c.3.1.2 d.16.1.5 PDB: 1gos_A* 1oj9_A* 1ojb_A* 1ojc_A*
1ojd_A* 1s2q_A* 1s2y_A* 1oja_A* 1s3b_A* 2bk3_A* 2byb_A*
2c64_A* 2c65_A* 2c66_A* 2c67_A* 2c70_A* 2v5z_A* 2v60_A*
2v61_A* 2vrl_A* ...
Length = 520
Score = 48.3 bits (115), Expect = 4e-06
Identities = 30/182 (16%), Positives = 63/182 (34%), Gaps = 14/182 (7%)
Query: 298 VEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKVTLNNDQHIEANHVVSALPAP 357
GG + + + L VK++ ++ + V V N + EA +V+SA+P
Sbjct: 210 FVGGSGQVSERIMDLL--GDRVKLERPVIYIDQTRENVLVETLNHEMYEAKYVISAIP-- 265
Query: 358 KLGMLLHKQ-HPTL-GNLLSSIEHVNVAVIN---LAYENIP-MKQNAFGFLVPPREKLPI 411
+ + +P L I V + + + Y+ K++ G ++ E+ P+
Sbjct: 266 -PTLGMKIHFNPPLPMMRNQMITRVPLGSVIKCIVYYKEPFWRKKDYCGTMIIDGEEAPV 324
Query: 412 LGVVFDSCCFEQADWTILTVMMGGAWYDTYFKGQSKEYILDIACRYVHEILDMPRTPHAQ 471
D + ++ + + +KE L C ++L
Sbjct: 325 -AYTLDD-TKPEGNYAAIMGFILAHKAR-KLARLTKEERLKKLCELYAKVLGSLEALEPV 381
Query: 472 HV 473
H
Sbjct: 382 HY 383
>2b9w_A Putative aminooxidase; isomerase, conjugated linoleic acid, FAD;
HET: FAD 12P; 1.95A {Propionibacterium acnes} PDB:
2b9x_A* 2b9y_A* 2ba9_A* 2bab_A* 2bac_A*
Length = 424
Score = 48.0 bits (114), Expect = 5e-06
Identities = 32/215 (14%), Positives = 65/215 (30%), Gaps = 21/215 (9%)
Query: 294 SVWSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKVTLNNDQHIEANHVVSA 353
+W+ G Q + L L + + + T + + V + D E++ +V
Sbjct: 197 DLWTWADGTQAMFEHLNATL--EHPAERNVDITRITREDGKVHIH-TTDWDRESDVLVLT 253
Query: 354 LPAPKLGMLLHKQHPTLGNLLSSIEHVNVAVINLAYENIPMKQNAFGFLVPPREKLPILG 413
+P K S I H V + P + P
Sbjct: 254 VPLEKFLDYSDAD-DDEREYFSKIIHQQYMVDACLVKEYPTISGYVPDNMRPERLGH--- 309
Query: 414 VVFDSCCFEQADWTILTVMMGGAWYDTYFKGQSKEYILDIACRYVH-------EILDMPR 466
V+ + I+T + D + +++E + + +I++
Sbjct: 310 VMVYYHRWADDPHQIITTYLLRNHPD--YADKTQEECRQMVLDDMETFGHPVEKIIEEQT 367
Query: 467 TPHAQHVEILKACIPQYTLGHAARVKDIQGYIDTH 501
+ HV Y G +V+ +QG +T
Sbjct: 368 WYYFPHVS-----SEDYKAGWYEKVEGMQGRRNTF 397
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 47.6 bits (114), Expect = 6e-06
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPEL 51
+L GP G GKT LA ++ E N + P +
Sbjct: 58 ILFSGPAGLGKTTLANIISYEMSANIKTTAAPMI 91
>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase,
winged-helix domain, ATP hydrolysis, walker A, walker
B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga
maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A*
1in8_A* 1in7_A* 1j7k_A*
Length = 334
Score = 47.6 bits (114), Expect = 6e-06
Identities = 18/34 (52%), Positives = 20/34 (58%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPEL 51
VLL GPPG GKT LA +A+E N GP L
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVL 87
>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 = 47.6 bits (112), Expect = 6e-06
Identities = 31/300 (10%), Positives = 75/300 (25%), Gaps = 53/300 (17%)
Query: 22 GPPGCGKTLLAKAVANE---------AGINFISVKGPELLNMY---------LGES---- 59
G G GKT LAK + V N+Y G
Sbjct: 59 GRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVR 118
Query: 60 -----ERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFE 114
+ + ++ DE ++ + + ++ E+ +
Sbjct: 119 GAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPR---IAAEDLYTLLRVHEEIPSRD 175
Query: 115 GRGGVFLMAATNRPDIIDPAVMRPGR----FDRILFVNLPNEQDRKEILLALTKQGKDPM 170
G + + + + + + L + ++ IL + G
Sbjct: 176 GVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDT 235
Query: 171 MGEDVDFDKIAAD-ERCEGFSGADLE--QLVKEAREQAILEIVNSVENDDQAGIDDTEQV 227
+ E + I+ +G G+ +K A E A + +
Sbjct: 236 VWEPRHLELISDVYGEDKGGDGSARRAIVALKMACEMAEAM--------------GRDSL 281
Query: 228 TIGFRHFDIALKRIKPSVSKADCKNYESLKQRYTTPGAIKEMMSKRPDLSGYEESELYRR 287
+ A+ + + + S+ + + + ++ + Y
Sbjct: 282 SE--DLVRKAVSENEAASIQTHELEALSIHELIILRLIAEATLGGMEWINAGLLRQRYED 339
>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 = 43.1 bits (102), Expect = 8e-06
Identities = 13/65 (20%), Positives = 29/65 (44%), Gaps = 7/65 (10%)
Query: 154 DRKEILLALTKQGKDPM-MGEDVDFDKIAADERCEGFSGADLEQLVKEAREQAILEIVNS 212
+R+ I + + M + + D D + R + SGA + +++EA +A+ +
Sbjct: 2 ERRLIFGTIASK----MSLAPEADLDSLI--IRNDSLSGAVIAAIMQEAGLRAVRKNRYV 55
Query: 213 VENDD 217
+ D
Sbjct: 56 ILQSD 60
>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 = 46.4 bits (111), Expect = 1e-05
Identities = 17/34 (50%), Positives = 22/34 (64%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPEL 51
+LL GPPG GKT LA +A+E G+N GP +
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAI 74
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 46.7 bits (111), Expect = 1e-05
Identities = 40/243 (16%), Positives = 76/243 (31%), Gaps = 80/243 (32%)
Query: 18 VLLCGPPGCGKTLLAKAVANE-AGINFISVK-----------GPELLNMYLGESERAVRQ 65
V L GPPG K+L+A+ + GP + E
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQALKDEGR----- 98
Query: 66 CFQRARNSQPC---VIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGR---GGV 119
++R + ++F DEI + I+N LLT ++ E + G
Sbjct: 99 -YERLTSGYLPEAEIVFLDEI------------WKAGPAILNTLLTAIN--ERQFRNGAH 143
Query: 120 -------FLMAATNRPDIIDP-----AVMRPGRFDRILF---VNLPNEQDRKEILLALTK 164
L+AA+N + A+ DR+L ++ ++ +L +
Sbjct: 144 VEKIPMRLLVAASNEL--PEADSSLEALY-----DRMLIRLWLDKVQDKANFRSMLTSQQ 196
Query: 165 QGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVKEARE--------QAILEIVNSVEND 216
D + + + + + E+ KE E + I + ++
Sbjct: 197 DENDNPVPDALQ------------VTDEEYERWQKEIGEITLPDHVFELIFMLRQQLDKL 244
Query: 217 DQA 219
A
Sbjct: 245 PDA 247
>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 = 46.3 bits (109), Expect = 2e-05
Identities = 30/197 (15%), Positives = 50/197 (25%), Gaps = 40/197 (20%)
Query: 13 STPSGVLLCGPPGCGKTLLAKAVANE----AGINFISVKGPELLNMY------------- 55
L G PG GKT+ + + F+ + G N
Sbjct: 42 HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIP 101
Query: 56 ---LGESERAVRQCFQRA--RNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEM 110
G S + D+ L P I++ +
Sbjct: 102 FPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPD------------ILSTFIRLG 149
Query: 111 DGFEGRGG--VFLMAATNRPDI---IDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQ 165
+ G + L+ + + +DP+ I F +Q +ILL K
Sbjct: 150 QEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQ-IFDILLDRAKA 208
Query: 166 GKDPMMGEDVDFDKIAA 182
G + IA
Sbjct: 209 GLAEGSYSEDILQMIAD 225
>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 = 45.3 bits (108), Expect = 2e-05
Identities = 25/90 (27%), Positives = 40/90 (44%), Gaps = 11/90 (12%)
Query: 14 TPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNM-YLGE--------SERAVR 64
TP +L+ GP G GKT +A+ +A A FI V+ + + Y+G+ +
Sbjct: 49 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAG 108
Query: 65 QCFQRARNSQPCVIFFDEIDALCPKRSSLG 94
+ ++F DEID +C K G
Sbjct: 109 GAIDAVEQNG--IVFIDEIDKICKKGEYSG 136
>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 = 43.9 bits (104), Expect = 3e-05
Identities = 14/53 (26%), Positives = 18/53 (33%), Gaps = 4/53 (7%)
Query: 5 KYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEA----GINFISVKGPELLN 53
+ F G+ G PG GKT LA A GI +L+
Sbjct: 28 VFVHNFNPEEGKGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIF 80
>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 = 45.1 bits (106), Expect = 4e-05
Identities = 36/197 (18%), Positives = 64/197 (32%), Gaps = 37/197 (18%)
Query: 13 STPSGVLLCGPPGCGKTLLAKAVANE------AGINFISVKGPELLNMY----------- 55
P+ + + G G GKT + K V ++ + + ++ Y
Sbjct: 43 EKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLD 102
Query: 56 -------LGESERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLT 108
L +E R VI DEIDA K + I+ +L
Sbjct: 103 VKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYND--------DILYKLS- 153
Query: 109 EMDGFEGRGGVFLMAATNRPDI---IDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQ 165
++ + + + TN +DP V + I+F N ++ ++IL +
Sbjct: 154 RINSEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIF-PPYNAEELEDILTKRAQM 212
Query: 166 GKDPMMGEDVDFDKIAA 182
P + D AA
Sbjct: 213 AFKPGVLPDNVIKLCAA 229
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 42.8 bits (101), Expect = 8e-05
Identities = 18/71 (25%), Positives = 32/71 (45%), Gaps = 6/71 (8%)
Query: 17 GVLLCGPPGCGKTLLAKAVANEA---GINFISVKGPELLN-MYLGESERAVRQCFQRARN 72
G+ L G G GKT L A+ANE ++ + V PEL + ++ + + +
Sbjct: 56 GLYLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLDYIKK 115
Query: 73 SQPCVIFFDEI 83
V+ D++
Sbjct: 116 VP--VLMLDDL 124
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 43.7 bits (103), Expect = 9e-05
Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 7/84 (8%)
Query: 5 KYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANE----AGINFISVKGPELLN-MYLGES 59
+ + + + G+ L G G GK+ L A+A+E G++ + P + S
Sbjct: 142 DFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAIS 201
Query: 60 ERAVRQCFQRARNSQPCVIFFDEI 83
+V++ +N V+ D+I
Sbjct: 202 NGSVKEEIDAVKNVP--VLILDDI 223
>2jae_A L-amino acid oxidase; oxidoreductase, dimerisation mode, hydride
transfer mechanism, GR2-family, flavoenzyme, FAD
containing; HET: FAD; 1.25A {Rhodococcus opacus} PDB:
2jb1_A* 2jb2_A* 2jb3_A*
Length = 489
Score = 43.7 bits (103), Expect = 1e-04
Identities = 23/177 (12%), Positives = 59/177 (33%), Gaps = 9/177 (5%)
Query: 291 EKWSVWSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKVTLNND---QHIEA 347
+ +++ GG+ I + + + T+++ + +GV V + I A
Sbjct: 227 QAMMMFTPVGGMDRIYYAFQDRIGTD-NIVFGAEVTSMKNVSEGVTVEYTAGGSKKSITA 285
Query: 348 NHVVSALPAPKLGMLLHKQHPTLGNLLSSIEHVNVAVINLAYENI--PMKQNAFGFLVPP 405
++ + +P +G L + + L + + + + + Y + +G
Sbjct: 286 DYAICTIPPHLVGRLQNNLPGDVLTALKAAKPSSSGKLGIEYSRRWWETEDRIYGGASNT 345
Query: 406 REKLPILGVVFDSCCFEQADWTILTVMMGGAWYDTYFKGQSKEYILDIACRYVHEIL 462
I ++F + ++ G + F+ + L A EI
Sbjct: 346 D--KDISQIMFPYDHYNSDRGVVVAYYSSGKRQEA-FESLTHRQRLAKAIAEGSEIH 399
>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 = 41.8 bits (98), Expect = 2e-04
Identities = 12/35 (34%), Positives = 21/35 (60%)
Query: 11 GKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFIS 45
G TP+ +++ G P GKT L++A+A + +S
Sbjct: 1 GMQTPALIIVTGHPATGKTTLSQALATGLRLPLLS 35
>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 = 41.4 bits (98), Expect = 3e-04
Identities = 25/80 (31%), Positives = 31/80 (38%), Gaps = 19/80 (23%)
Query: 19 LLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYL---GESER---AVRQ---CFQR 69
L GPPG GKT A A+A + G + ++ ER VR F R
Sbjct: 42 LFSGPPGTGKTATAIALARDLF-------GENWRDNFIEMNASDERGIDVVRHKIKEFAR 94
Query: 70 ARNSQPC---VIFFDEIDAL 86
+IF DE DAL
Sbjct: 95 TAPIGGAPFKIIFLDEADAL 114
>2vvm_A Monoamine oxidase N; FAD, peroxisome, flavoprotein, oxidoreductase,
enantioselectivity, directed evolution variant; HET:
FAD; 1.85A {Aspergillus niger} PDB: 2vvl_A* 2vvl_G*
Length = 495
Score = 42.2 bits (99), Expect = 4e-04
Identities = 9/66 (13%), Positives = 20/66 (30%), Gaps = 2/66 (3%)
Query: 296 WSVEGGLQTIVNTLGEHL--SNKVEVKMDTTCTNLEFLEKGVKVTLNNDQHIEANHVVSA 353
+ + G E + ++ ++ +VT + + A VV
Sbjct: 248 YKFKDGQSAFARRFWEEAAGTGRLGYVFGCPVRSVVNERDAARVTARDGREFVAKRVVCT 307
Query: 354 LPAPKL 359
+P L
Sbjct: 308 IPLNVL 313
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 41.5 bits (96), Expect = 4e-04
Identities = 25/152 (16%), Positives = 45/152 (29%), Gaps = 27/152 (17%)
Query: 11 GKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERAVRQCFQRA 70
+P+ LL G PG GKT L A+ E N I +
Sbjct: 29 AVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTF------------------- 69
Query: 71 RNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGGVFLMAATNRPDI 130
+ P FDE+ L K S R+ +++ + + + + D+
Sbjct: 70 KQQHP---NFDELVKLYEKDVVKHVTPYSNRMTEAIISRL--SDQGYNLVIEGTGRTTDV 124
Query: 131 IDPAVMRP---GRFDRILFVNLPNEQDRKEIL 159
G ++ + +P +
Sbjct: 125 PIQTATMLQAKGYETKMYVMAVPKINSYLGTI 156
>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 = 40.4 bits (94), Expect = 5e-04
Identities = 25/143 (17%), Positives = 43/143 (30%), Gaps = 33/143 (23%)
Query: 19 LLCGPPGCGKTLLA-------------------KAVANEAGIN----FISVKGPELLNMY 55
L+ G PG GKTL K N G+ +I +L
Sbjct: 9 LITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKST 68
Query: 56 LGESERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEG 115
+ + + + ++ DE + P RS+ + V L
Sbjct: 69 DEQLSAHDMYEWIKKPENIGSIVIVDEAQDVWPARSA---GSKIPENVQWL------NTH 119
Query: 116 R-GGVFLMAATNRPDIIDPAVMR 137
R G+ + T P ++D +
Sbjct: 120 RHQGIDIFVLTQGPKLLDQNLRT 142
>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 = 40.5 bits (94), Expect = 5e-04
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 14 TPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKG 48
+ +LL G PG GK+ +A+A+AN G+ +
Sbjct: 8 GGNILLLSGHPGSGKSTIAEALANLPGVPKVHFHS 42
>2chq_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATP ATP-binding,
nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus
fulgidus} PDB: 2chv_A
Length = 319
Score = 41.2 bits (97), Expect = 5e-04
Identities = 25/80 (31%), Positives = 31/80 (38%), Gaps = 19/80 (23%)
Query: 19 LLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYL---GESER---AVRQ---CFQR 69
L GPPG GKT A A+A + G + ++ ER VR F R
Sbjct: 42 LFSGPPGTGKTATAIALARDLF-------GENWRDNFIEMNASDERGIDVVRHKIKEFAR 94
Query: 70 ARNSQPC---VIFFDEIDAL 86
+IF DE DAL
Sbjct: 95 TAPIGGAPFKIIFLDEADAL 114
>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 = 40.0 bits (93), Expect = 6e-04
Identities = 14/30 (46%), Positives = 22/30 (73%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVK 47
+LL G PG GKT L K +A+++G+ +I+V
Sbjct: 14 ILLTGTPGVGKTTLGKELASKSGLKYINVG 43
>3k7m_X 6-hydroxy-L-nicotine oxidase; enantiomeric substrates,
flavoenzymes, nicotine degradation, oxidoreductase; HET:
FAD GP7; 1.95A {Arthrobacter nicotinovorans} PDB:
3k7q_X* 3ng7_X* 3ngc_X* 3nh3_X* 3nho_X* 3nk0_X* 3nk1_X*
3nk2_X* 3nn0_X* 3nn6_X* 3k7t_A*
Length = 431
Score = 41.0 bits (96), Expect = 8e-04
Identities = 13/86 (15%), Positives = 31/86 (36%), Gaps = 3/86 (3%)
Query: 275 DLSGYEESELYRRSRIEKWSVWSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKG 334
+ + Y + G +V+ + + + E+++ T T ++
Sbjct: 179 WMLQLVAAHHYSILGVVLSLDEVFSNGSADLVDAMSQEIP---EIRLQTVVTGIDQSGDV 235
Query: 335 VKVTLNNDQHIEANHVVSALPAPKLG 360
V VT+ + +A+ V+ A P
Sbjct: 236 VNVTVKDGHAFQAHSVIVATPMNTWR 261
>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 = 40.8 bits (95), Expect = 9e-04
Identities = 22/95 (23%), Positives = 32/95 (33%), Gaps = 9/95 (9%)
Query: 1 MFPVKYPKLFGKSTP--SGVLLCGPPGCGKTLLAKAVANEAGINFISVKGP-ELLNMYLG 57
+ K + P L GP GKT LA A+ G ++V P + LN LG
Sbjct: 153 SVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELG 212
Query: 58 ESERAVRQCFQRA------RNSQPCVIFFDEIDAL 86
+ F+ P + +D L
Sbjct: 213 VAIDQFLVVFEDVKGTGGESRDLPSGQGINNLDNL 247
>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 = 40.4 bits (95), Expect = 0.001
Identities = 26/80 (32%), Positives = 33/80 (41%), Gaps = 19/80 (23%)
Query: 19 LLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYL---GESER---AVRQ---CFQR 69
L GPPG GKT A A+A E G + +L ER +R+ F R
Sbjct: 50 LFAGPPGVGKTTAALALARELF-------GENWRHNFLELNASDERGINVIREKVKEFAR 102
Query: 70 ARNSQPC---VIFFDEIDAL 86
+ +IF DE DAL
Sbjct: 103 TKPIGGASFKIIFLDEADAL 122
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 40.6 bits (94), Expect = 0.001
Identities = 31/164 (18%), Positives = 51/164 (31%), Gaps = 37/164 (22%)
Query: 13 STPSGVLLCGPPGCGKTLLAKAVANE--------------AGINFISVKGPELLNMYLGE 58
PS LL G G GKT +A+ V +N + P + + E
Sbjct: 42 EKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAE 101
Query: 59 S-------------ERAVRQCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQ 105
+ E R + +R +I DEID L + ++ +
Sbjct: 102 AVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQ-------DLLYR 154
Query: 106 LLTEMDGFEGRGGVFLMAATNRPDI---IDPAVMRPGRFDRILF 146
+ R V L+ TN ++P V ++F
Sbjct: 155 ITRINQELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVF 198
>1b37_A Protein (polyamine oxidase); flavin-dependent amine oxidase,
oxidoreductase; HET: NAG FCA MAN FAD; 1.90A {Zea mays}
SCOP: c.3.1.2 d.16.1.5 PDB: 1b5q_A* 1h81_A* 1h82_A*
1h83_A* 1h84_A* 1h86_A* 3kpf_A* 3ku9_A* 3l1r_A*
Length = 472
Score = 40.3 bits (94), Expect = 0.001
Identities = 26/196 (13%), Positives = 62/196 (31%), Gaps = 20/196 (10%)
Query: 296 WSVEGGLQTIVNTLGEHLSNKVE---------VKMDTTCTNLEFLEKGVKVTLNNDQHIE 346
+ + G + +V L + ++++ +++ GV V ++
Sbjct: 199 VADQRGYEAVVYYLAGQYLKTDDKSGKIVDPRLQLNKVVREIKYSPGGVTVKTEDNSVYS 258
Query: 347 ANHVVSALPAPKLGMLLHKQ---HPTL-GNLLSSIEHVNVAVIN---LAYENIPMKQNAF 399
A++V+ + LG+L P L + +I ++AV L + +
Sbjct: 259 ADYVMVSAS---LGVLQSDLIQFKPKLPTWKVRAIYQFDMAVYTKIFLKFPRKFWPEGKG 315
Query: 400 GFLVPPREKLPILGVVFDSCCFEQADWTILTVMMGGAWYDTYFKGQSKEYILDIACRYVH 459
V+ + D +L V + + QS E + +
Sbjct: 316 REFFLYASSRRGYYGVWQEFEKQYPDANVLLVTVTDEESR-RIEQQSDEQTKAEIMQVLR 374
Query: 460 EILDMPRTPHAQHVEI 475
++ P A + +
Sbjct: 375 KMFPGKDVPDATDILV 390
>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 = 40.3 bits (94), Expect = 0.002
Identities = 38/168 (22%), Positives = 60/168 (35%), Gaps = 37/168 (22%)
Query: 18 VLLCGPPGCGKTLLAKAVANE------AGINFISVKGPELLNMYL-----GESERAVRQC 66
++LCGPPG GKT+ + +NF S PELL + +
Sbjct: 1307 LILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPSGETV 1366
Query: 67 FQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRG--------G 118
+ + + V+F DEI+ P G + + Q++ E GF
Sbjct: 1367 LRPTQLGKWLVVFCDEINL--PSTDKYGT-QRVITFIRQMV-EKGGFWRTSDHTWIKLDK 1422
Query: 119 VFLMAATNRPD-----IIDPAVMRPGRFDR---ILFVNLPNEQDRKEI 158
+ + A N P + RF R IL V+ P+ +I
Sbjct: 1423 IQFVGACNPPTDAGRVQLTH------RFLRHAPILLVDFPSTSSLTQI 1464
>2yg5_A Putrescine oxidase; oxidoreductase, flavin; HET: FAD; 1.90A
{Rhodococcus erythropolis} PDB: 2yg6_A* 2yg3_A* 2yg4_A*
2yg7_A* 3rha_A*
Length = 453
Score = 40.1 bits (94), Expect = 0.002
Identities = 30/172 (17%), Positives = 60/172 (34%), Gaps = 14/172 (8%)
Query: 296 WSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKVTLNNDQHIEANHVVSALP 355
V GG+Q + + E L + V ++ +++ E G V + D +EA+ V+ A+P
Sbjct: 208 KRVIGGMQQVSIRMAEALGDDV--FLNAPVRTVKWNESGATVLADGDIRVEASRVILAVP 265
Query: 356 APKLGMLLHKQ-HPTL-GNLLSSIEHVNVAVIN---LAYENIPMKQNAFGFLVPPREKLP 410
+ P L +H ++ ++ YE +++ ++
Sbjct: 266 ---PNLYSRISYDPPLPRRQHQMHQHQSLGLVIKVHAVYETPFWREDGLSGTGFGASEV- 321
Query: 411 ILGVVFDSCCFEQADWTILTVMMGGAWYDTYFKGQSKEYILDIACRYVHEIL 462
+ V+D+ E D L + D S E + L
Sbjct: 322 -VQEVYDNTNHE-DDRGTLVAFVSDEKAD-AMFELSAEERKATILASLARYL 370
>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 = 40.2 bits (94), Expect = 0.002
Identities = 35/164 (21%), Positives = 56/164 (34%), Gaps = 30/164 (18%)
Query: 18 VLLCGPPGCGKTLLAKAVANE------AGINFISVKGP----ELLNMYLGESERAVRQCF 67
++LCGPPG GKT++ GINF L+ + +
Sbjct: 1270 IILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVTTSKGLTL 1329
Query: 68 QRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGGVFLMAATNR 127
+ + V+F DEI+ PK G + + + QL+ E GF +
Sbjct: 1330 LPKSDIKNLVLFCDEINL--PKLDKYGS-QNVVLFLRQLM-EKQGFWKTPENKWV---TI 1382
Query: 128 PDIIDPAVMRP----GRFD---------RILFVNLPNEQDRKEI 158
I P GR IL++ P+ + +I
Sbjct: 1383 ERIHIVGACNPPTDPGRIPMSERFTRHAAILYLGYPSGKSLSQI 1426
Score = 31.3 bits (71), Expect = 1.00
Identities = 14/73 (19%), Positives = 28/73 (38%), Gaps = 6/73 (8%)
Query: 13 STPSG-VLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMY-LGESERAVRQCFQRA 70
G ++L G GKT+L + VA G+ + P++ L + + +++
Sbjct: 1606 KQVQGHMMLIGASRTGKTILTRFVAWLNGLKIVQ---PKIHRHSNLSDFDMILKKAISDC 1662
Query: 71 -RNSQPCVIFFDE 82
+ DE
Sbjct: 1663 SLKESRTCLIIDE 1675
>3ka7_A Oxidoreductase; structural genomics, PSI-2, protein structure
initiative, northeast structural genomics consortium,
NESG; HET: FAD; 1.80A {Methanosarcina mazei}
Length = 425
Score = 39.3 bits (92), Expect = 0.002
Identities = 12/78 (15%), Positives = 29/78 (37%), Gaps = 1/78 (1%)
Query: 292 KWSVWSVEGGLQTIVNTLGEHL-SNKVEVKMDTTCTNLEFLEKGVKVTLNNDQHIEANHV 350
EGG + I++ L + +N ++ + + + +D+ +A+ V
Sbjct: 185 FGGTGIPEGGCKGIIDALETVISANGGKIHTGQEVSKILIENGKAAGIIADDRIHDADLV 244
Query: 351 VSALPAPKLGMLLHKQHP 368
+S L +L +
Sbjct: 245 ISNLGHAATAVLCSEALS 262
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL
helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 38.7 bits (89), Expect = 0.003
Identities = 22/172 (12%), Positives = 47/172 (27%), Gaps = 28/172 (16%)
Query: 15 PSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERAVRQCFQRARNSQ 74
P +LL G G GKT + + E N + + G + +
Sbjct: 32 PIAILLGGQSGAGKTTIHRIKQKEFQGNIVIIDGDSFRSQHPH----------------- 74
Query: 75 PCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGGVFLMAATNRPDIIDPA 134
+ E+ K S + + ++V L+T++ + + D+
Sbjct: 75 -----YLELQQEYGKDSVEYTKDFAGKMVESLVTKL--SSLGYNLLIEGTLRTVDVPKKT 127
Query: 135 VMRP---GRFDRILFVNLPNEQDRKEILL-ALTKQGKDPMMGEDVDFDKIAA 182
G ++ + E L+ +P +
Sbjct: 128 AQLLKNKGYEVQLALIATKPELSYLSTLIRYEELYIINPNQARATPKEHHDF 179
>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta
protein., structural genomics, PSI-2, protein structure
initiative; HET: G3D; 2.20A {Bacillus subtilis} PDB:
2axp_A*
Length = 173
Score = 37.4 bits (87), Expect = 0.004
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFI 44
++L GP C K+ +A ++ E I
Sbjct: 4 IILEGPDCCFKSTVAAKLSKELKYPII 30
>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 = 38.5 bits (90), Expect = 0.004
Identities = 18/82 (21%), Positives = 32/82 (39%), Gaps = 20/82 (24%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYL---GESER---AVRQ---CFQ 68
+++ G PG GKT +A+E + G + L +R VR F
Sbjct: 45 MIISGMPGIGKTTSVHCLAHE-------LLGRSYADGVLELNASDDRGIDVVRNQIKHFA 97
Query: 69 RARNSQPC----VIFFDEIDAL 86
+ + P ++ DE D++
Sbjct: 98 QKKLHLPPGKHKIVILDEADSM 119
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein
structure initiati YORK structural genomics research
consortium, nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 37.7 bits (87), Expect = 0.004
Identities = 10/33 (30%), Positives = 18/33 (54%)
Query: 12 KSTPSGVLLCGPPGCGKTLLAKAVANEAGINFI 44
+ P +++ G G GK+ + +A+A G FI
Sbjct: 15 RRFPGSIVVMGVSGSGKSSVGEAIAEACGYPFI 47
>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 = 38.4 bits (90), Expect = 0.005
Identities = 33/108 (30%), Positives = 46/108 (42%), Gaps = 38/108 (35%)
Query: 16 SGVLLCGPPGCGKTLLAKAVAN---------------EAGINFISVKGPELLNMYLGES- 59
S +LL GP G GKTL+A+ +A EAG Y+GE
Sbjct: 73 SNILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTEAG--------------YVGEDV 118
Query: 60 ERAVRQCFQRA----RNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIV 103
E + + Q + + +Q ++F DEID K S L +N S R V
Sbjct: 119 ENILTRLLQASDWNVQKAQKGIVFIDEID----KISRLSENRSITRDV 162
>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 = 38.3 bits (90), Expect = 0.005
Identities = 32/108 (29%), Positives = 46/108 (42%), Gaps = 38/108 (35%)
Query: 16 SGVLLCGPPGCGKTLLAKAVAN---------------EAGINFISVKGPELLNMYLGES- 59
S +LL GP G GKTLLA+ +A EAG Y+GE
Sbjct: 52 SNILLIGPTGSGKTLLAETLARLLDVPFTMADATTLTEAG--------------YVGEDV 97
Query: 60 ERAVRQCFQRA----RNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIV 103
E +++ Q+ + +Q +++ D+ID K S DN S R V
Sbjct: 98 ENIIQKLLQKCDYDVQKAQRGIVYIDQID----KISRKSDNPSITRDV 141
>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 = 37.5 bits (87), Expect = 0.006
Identities = 16/83 (19%), Positives = 34/83 (40%), Gaps = 13/83 (15%)
Query: 18 VLLCGPPGCGKTLLAKAVA---NEAGINFISVKGPEL---LNMYLGESERAVRQCFQRAR 71
++L G PG GK+ +K +A ++ I+ I + + ++ + E +++ R
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPVWKEKYEEFIKKSTYRLI 66
Query: 72 N---SQPCVIFFDEIDALCPKRS 91
+ VI +D S
Sbjct: 67 DSALKNYWVI----VDDTNYYNS 85
>2xag_A Lysine-specific histone demethylase 1; amine oxidase, chromatin
regulator, histone inhibitor binding, methylation,
nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A
{Homo sapiens} PDB: 2xaf_A* 2xah_A* 2xaj_A* 2xaq_A*
2xas_A* 2com_A
Length = 852
Score = 38.4 bits (88), Expect = 0.006
Identities = 28/201 (13%), Positives = 69/201 (34%), Gaps = 38/201 (18%)
Query: 296 WSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKV------TLNNDQHIEANH 349
+V G + L+ +++K++T + + G +V + + + +
Sbjct: 565 LTVRNGYSCVP----VALAEGLDIKLNTAVRQVRYTASGCEVIAVNTRSTSQTFIYKCDA 620
Query: 350 VVSALPAPKLGMLLHKQHPTLG-------NLLSSIEHVNVAVIN---LAYENI--PMKQN 397
V+ LP +L +Q P + S+++ + +N L ++ + N
Sbjct: 621 VLCTLPLG----VLKQQPPAVQFVPPLPEWKTSAVQRMGFGNLNKVVLCFDRVFWDPSVN 676
Query: 398 AFGFLVPP---REKLPILGVVFDSCCFEQADWTILTVMMGGAWYDTYFKGQSKEYILDIA 454
FG + R +L + ++ + IL ++ G + S + I+
Sbjct: 677 LFGHVGSTTASRGELFLFWNLYKAP--------ILLALVAGEAAG-IMENISDDVIVGRC 727
Query: 455 CRYVHEILDMPRTPHAQHVEI 475
+ I P + +
Sbjct: 728 LAILKGIFGSSAVPQPKETVV 748
>2iid_A L-amino-acid oxidase; flavoenzyme, FAD binding domain, reaction
mechanism, sustrat binding, oxidoreductase; HET: NAG FUC
PHE FAD; 1.80A {Calloselasma rhodostoma} SCOP: c.3.1.2
d.16.1.5 PDB: 1f8s_A* 1f8r_A* 1reo_A* 1tdk_A* 1tdn_A*
1tdo_A* 3kve_A* 4e0v_A*
Length = 498
Score = 37.9 bits (88), Expect = 0.007
Identities = 19/175 (10%), Positives = 50/175 (28%), Gaps = 17/175 (9%)
Query: 296 WSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKVTL----NNDQHIEANHVV 351
+ G+ + + + +KV + ++ ++ V V + A++V+
Sbjct: 234 DEIVDGMDKLPTAMYRDIQDKV--HFNAQVIKIQQNDQKVTVVYETLSKETPSVTADYVI 291
Query: 352 SALPAPKLGMLLHKQHPTLGNLLSSIEHVNVAVIN---LAYENI--PMKQNAFGFLVPPR 406
+ + + + P L ++ V+ L G
Sbjct: 292 VCTTSRAVRL-IKFNPPLLPKKAHALRSVHYRSGTKIFLTCTTKFWEDDGIHGGKSTTDL 350
Query: 407 EKLPILGVVFDSCCFEQADWTILTVMMGGAWYDTYFKGQSKEYILDIACRYVHEI 461
P + + + F ++ G + F+ + DI + I
Sbjct: 351 ---PSRFIYYPNHNF-TNGVGVIIAYGIGDDANF-FQALDFKDCADIVFNDLSLI 400
>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase,
nucleotide-binding, Pro serine protease, stress
response; HET: ADP; 3.40A {Bacillus subtilis} PDB:
1x37_A
Length = 543
Score = 37.5 bits (88), Expect = 0.011
Identities = 30/84 (35%), Positives = 36/84 (42%), Gaps = 28/84 (33%)
Query: 20 LC--GPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLG----ESE-RAVR-------- 64
LC GPPG GKT LAK++A G F+ + LG ESE R R
Sbjct: 111 LCLAGPPGVGKTSLAKSIAKSLGRKFVR--------ISLGGVRDESEIRGHRRTYVGAMP 162
Query: 65 ----QCFQRARNSQPCVIFFDEID 84
Q ++A P V DEID
Sbjct: 163 GRIIQGMKKAGKLNP-VFLLDEID 185
>3bdd_A Regulatory protein MARR; putative multiple antibiotic-resistance
repressor, structura genomics, joint center for
structural genomics, JCSG; 2.20A {Streptococcus suis}
Length = 142
Score = 35.1 bits (81), Expect = 0.018
Identities = 7/50 (14%), Positives = 22/50 (44%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
N +++E+L+ T+Q ++ ++ + + + + EQ +
Sbjct: 79 RNPDNQREVLVWPTEQAREALITNPSAHHQAIKTSMNQILTVEESEQFLA 128
>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 = 36.6 bits (85), Expect = 0.018
Identities = 25/81 (30%), Positives = 31/81 (38%), Gaps = 19/81 (23%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYL---GESER---AVRQ---CFQ 68
+L GPPG GKT A+A E + G NM L +R VR F
Sbjct: 49 LLFYGPPGTGKTSTIVALARE-------IYGKNYSNMVLELNASDDRGIDVVRNQIKDFA 101
Query: 69 RARNSQPC---VIFFDEIDAL 86
R +I DE DA+
Sbjct: 102 STRQIFSKGFKLIILDEADAM 122
>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET:
ATP; NMR {Saccharomyces cerevisiae}
Length = 608
Score = 36.9 bits (86), Expect = 0.018
Identities = 20/139 (14%), Positives = 39/139 (28%), Gaps = 26/139 (18%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGP-------------ELLNMYLGESERAVR 64
+ L G G GK+ K +A + N P EL N + E ++
Sbjct: 106 LGLVGTNGIGKSTALKILAGKQKPNLGRFDDPPEWQEIIKYFRGSELQNYFTKMLEDDIK 165
Query: 65 QCFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQL-LTEMDGFEGR------G 117
+ + + + L S + + + +++ R G
Sbjct: 166 AIIKPQYVDNIPRAIKGPVQKVG-ELLKLRMEKSPEDVKRYIKILQLENVLKRDIEKLSG 224
Query: 118 G-----VFLMAATNRPDII 131
G M+ D+
Sbjct: 225 GELQRFAIGMSCVQEADVY 243
>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 = 36.3 bits (84), Expect = 0.021
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 17 GVLLCGPPGCGKTLLAKAVA 36
GVL+ G G GK+ +A+A
Sbjct: 47 GVLVFGDRGTGKSTAVRALA 66
>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 = 35.8 bits (82), Expect = 0.021
Identities = 18/101 (17%), Positives = 31/101 (30%)
Query: 22 GPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERAVRQCFQRARNSQPCVIFFD 81
G G ++ K +A E GI+F +L + E+ R ++A N+ +
Sbjct: 21 REYGSGGRIVGKKLAEELGIHFYDDDILKLASEKSAVGEQFFRLADEKAGNNLLYRLGGG 80
Query: 82 EIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGGVFLM 122
L K S S + M +
Sbjct: 81 RKIDLHSKPSPNDKLTSPENLFKFQSEVMRELAESEPCIFV 121
>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 = 35.1 bits (80), Expect = 0.030
Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 6/43 (13%)
Query: 11 GKSTPSG-----VLLCGPPGCGKTLLAKAVANEA-GINFISVK 47
G + +L+ G PG GKT +A+ +A E G + V
Sbjct: 1 GPGSMEQPKGINILITGTPGTGKTSMAEMIAAELDGFQHLEVG 43
>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 = 34.5 bits (79), Expect = 0.041
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFIS 45
++ GP G GK+ K +A + +
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQLDNSAYI 32
>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR
complex, HMR, HML, TELO AAA+ domain, structural,
nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}
Length = 318
Score = 35.3 bits (80), Expect = 0.048
Identities = 32/292 (10%), Positives = 73/292 (25%), Gaps = 50/292 (17%)
Query: 13 STPSGVLLCGPPGCGKTLLAKAVANE----------AGINFISVKGPELLNMYL------ 56
S + K L V +E ++I + EL M
Sbjct: 43 SQNKLFYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIW 102
Query: 57 ----------GESERAVRQCFQRARNSQ--PCVIFFDEIDALCPKRSSLGDNNSSMRIVN 104
S A+ ++ +I + L S +I+
Sbjct: 103 FAISKENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLL-----------SEKILQ 151
Query: 105 QLLTEMDGFEGRGGVFLMAATNRPD----IIDPAVMRPGRFDRILFVNLPNEQDRKEILL 160
+ + + + I+ F I + + + ++++
Sbjct: 152 YFEKWISSKNSKLSIICVG--GHNVTIREQINIMPSLKAHFTEIKLNKVDKNELQ-QMII 208
Query: 161 ALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVKEAREQAILEIVNSVENDDQAG 220
K P + D ++ + V + +I + +
Sbjct: 209 TRLKSLLKPFHVKVNDKKEMTIYNNIREGQNQKIPDNVIVINHKINNKITQLIAKNVANV 268
Query: 221 IDDTEQV-TIGFRHFDIALKRIKPSVSKADCKNYESLKQRYTTPGAIKEMMS 271
TE+ I +I+ K V K + + + + P E ++
Sbjct: 269 SGSTEKAFKICEAAVEISKKD---FVRKGGLQKGKLVVSQEMVPRYFSEAIN 317
>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 = 35.3 bits (82), Expect = 0.062
Identities = 11/31 (35%), Positives = 15/31 (48%), Gaps = 1/31 (3%)
Query: 15 PSGVLL-CGPPGCGKTLLAKAVANEAGINFI 44
P G L GP G GKT + ++ GI +
Sbjct: 487 PVGSFLFAGPTGVGKTEVTVQLSKALGIELL 517
>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A
{Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A
1ko5_A* 1ko8_A* 1kof_A*
Length = 175
Score = 33.9 bits (77), Expect = 0.065
Identities = 9/33 (27%), Positives = 15/33 (45%)
Query: 12 KSTPSGVLLCGPPGCGKTLLAKAVANEAGINFI 44
+L G G GK+ +A VA++ F+
Sbjct: 5 NHDHHIYVLMGVSGSGKSAVASEVAHQLHAAFL 37
>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 = 33.8 bits (77), Expect = 0.078
Identities = 35/202 (17%), Positives = 61/202 (30%), Gaps = 32/202 (15%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERAVRQCFQRARNSQPCV 77
+++ G PG GKT L K + G I E VR + R
Sbjct: 3 IIITGEPGVGKTTLVKKIVERLGKRAIGFWTEE------------VRDPETKKRTG---- 46
Query: 78 IFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGGVFLMAATNRPDIIDPAVMR 137
F I K+ +S ++V + FE L A V+
Sbjct: 47 --FRIITTEGKKKIFSSKFFTSKKLVGSYGVNVQYFEELAIPILERAYREAKKDRRKVI- 103
Query: 138 PGRFDRILFVNLPNEQDRKEILLALTKQGKD-----PMMGEDVDFDKIAADERCEGFSGA 192
D I + L +++ R + + + P+ +I
Sbjct: 104 --IIDEIGKMELFSKKFRDLVRQIMHDPNVNVVATIPIRDVHPLVKEIRRLPGAVLIE-- 159
Query: 193 DLEQLVKEAREQAILEIVNSVE 214
L E R+ + +I++ +E
Sbjct: 160 ----LTPENRDVILEDILSLLE 177
>1rsg_A FMS1 protein; FAD binding motif, oxidoreductase; HET: FAD; 1.90A
{Saccharomyces cerevisiae} PDB: 1z6l_A* 3bi2_A* 3bi4_A*
3bi5_A* 3bnm_B* 3bnu_B* 3cn8_B* 3cnd_B* 3cnp_B* 3cns_A*
3cnt_B* 1yy5_A* 1xpq_A*
Length = 516
Score = 34.8 bits (79), Expect = 0.082
Identities = 14/161 (8%), Positives = 47/161 (29%), Gaps = 19/161 (11%)
Query: 276 LSGYEESELYRRSRIEKWSVWS----VEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFL 331
L + + S + + ++V + + +K+ ++
Sbjct: 171 LELWHGLDWKLLSAKDTYFGHQGRNAFALNYDSVVQRIAQSFPQNW-LKLSCEVKSITRE 229
Query: 332 -EKGVKVTLNNDQHIEANHVVSALPAPKLGMLLHKQHPTLGNL----------LSSIEHV 380
K V V + A++V+ +P L + + + G + + + +
Sbjct: 230 PSKNVTVNCEDGTVYNADYVIITVPQSVLNLSVQPEKNLRGRIEFQPPLKPVIQDAFDKI 289
Query: 381 NVAVIN---LAYENIPMKQNAFGFLVPPREKLPILGVVFDS 418
+ + +E + + + +V ++
Sbjct: 290 HFGALGKVIFEFEECCWSNESSKIVTLANSTNEFVEIVRNA 330
>2z3y_A Lysine-specific histone demethylase 1; chromatin, nucleosome,
transcription, LSD1, alternative splicing, chromatin
regulator, coiled coil; HET: F2N; 2.25A {Homo sapiens}
SCOP: a.4.1.18 c.3.1.2 d.16.1.5 PDB: 2ejr_A* 2z5u_A*
3abt_A* 3abu_A* 2y48_A* 2v1d_A* 2h94_A* 2iw5_A* 2uxn_A*
2uxx_A* 2hko_A* 2dw4_A* 2x0l_A* 2l3d_A
Length = 662
Score = 34.9 bits (79), Expect = 0.084
Identities = 27/198 (13%), Positives = 64/198 (32%), Gaps = 32/198 (16%)
Query: 296 WSVEGGLQTIVNTLGEHLSNKVEVKMDTTCTNLEFLEKGVKV------TLNNDQHIEANH 349
+V G + L+ +++K++T + + G +V + + + +
Sbjct: 394 LTVRNGYSCVP----VALAEGLDIKLNTAVRQVRYTASGCEVIAVNTRSTSQTFIYKCDA 449
Query: 350 VVSALPAPKLGMLLHKQHPTLG-------NLLSSIEHVNVAVIN---LAYENI--PMKQN 397
V+ LP +L +Q P + S+++ + +N L ++ + N
Sbjct: 450 VLCTLPLG----VLKQQPPAVQFVPPLPEWKTSAVQRMGFGNLNKVVLCFDRVFWDPSVN 505
Query: 398 AFGFLVPPREKLPILGVVFDSCCFEQADWTILTVMMGGAWYDTYFKGQSKEYILDIACRY 457
FG + L + IL ++ G + S + I+
Sbjct: 506 LFGHVGSTTASRGEL-----FLFWNLYKAPILLALVAGEAAG-IMENISDDVIVGRCLAI 559
Query: 458 VHEILDMPRTPHAQHVEI 475
+ I P + +
Sbjct: 560 LKGIFGSSAVPQPKETVV 577
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 33.0 bits (76), Expect = 0.086
Identities = 11/71 (15%), Positives = 24/71 (33%), Gaps = 12/71 (16%)
Query: 20 LCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERAVRQCFQRARNSQPCVIF 79
+ G G GK+ L +A +A + Y+ + + A +
Sbjct: 41 VWGEEGAGKSHLLQAWVAQALEAGKNA-------AYIDAASMPLTDAAFEAE-----YLA 88
Query: 80 FDEIDALCPKR 90
D+++ L +
Sbjct: 89 VDQVEKLGNEE 99
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE;
1.57A {Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 33.3 bits (77), Expect = 0.10
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 20 LCGPPGCGKTLLAKAVANEAGINFI 44
G G GK+ LA+A+A + + F+
Sbjct: 9 FIGFMGSGKSTLARALAKDLDLVFL 33
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 34.3 bits (79), Expect = 0.11
Identities = 16/86 (18%), Positives = 32/86 (37%), Gaps = 10/86 (11%)
Query: 10 FGKSTPSGVLLCGPPGCGKTLLAKAVANE----------AGINFISVKGPELLNMYLGES 59
+ VLL G PG GK++L +A+A N P + + +
Sbjct: 55 TAANQKRHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPEDENMPRIKTVPACQG 114
Query: 60 ERAVRQCFQRARNSQPCVIFFDEIDA 85
R V + ++A++ + + +
Sbjct: 115 RRIVEKYREKAKSQESVKSSNMRLKS 140
Score = 28.5 bits (64), Expect = 6.8
Identities = 7/43 (16%), Positives = 9/43 (20%), Gaps = 6/43 (13%)
Query: 367 HPTLGNLLSSIEHVNVAVINLAYENIPM-KQNAF-----GFLV 403
G LL + H L + G L
Sbjct: 164 GAHAGALLGDVRHDPFQSGGLGTPAHERVEPGMIHRAHKGVLF 206
>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 = 33.4 bits (77), Expect = 0.12
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 20 LCGPPGCGKTLLAKAVANEAGINFI 44
L G G GKT L KA A + + FI
Sbjct: 30 LTGYMGAGKTTLGKAFARKLNVPFI 54
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme
function initiative, EFI, STRU genomics, transferase;
1.60A {Janibacter SP}
Length = 200
Score = 33.1 bits (75), Expect = 0.12
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 15 PSGVLLCGPPGCGKTLLAKAVANEAGINFISV 46
V++ G G GKT +A VA+E G+ F
Sbjct: 29 TRHVVVMGVSGSGKTTIAHGVADETGLEFAEA 60
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus
P2}
Length = 235
Score = 33.4 bits (77), Expect = 0.12
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 16 SGVLLCGPPGCGKTLLA 32
+ L G PG GKT+ +
Sbjct: 24 FFIALTGEPGTGKTIFS 40
>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 = 33.2 bits (75), Expect = 0.12
Identities = 5/37 (13%), Positives = 16/37 (43%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNM 54
++L G GK+ + + + + +++ L+
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEA 42
>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 = 32.9 bits (76), Expect = 0.13
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 20 LCGPPGCGKTLLAKAVANEAGINFI 44
L G G GK+ LA+ + + +
Sbjct: 12 LIGFMGSGKSSLAQELGLALKLEVL 36
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 33.5 bits (77), Expect = 0.13
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 16 SGVLLCGPPGCGKTLLA 32
+ VLL G PG GKT+ +
Sbjct: 24 NVVLLSGGPGTGKTIFS 40
>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 = 0.14
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 18 VLLCGPPGCGKTLLAKA 34
+L G PG GK+ A+
Sbjct: 5 ILTIGCPGSGKSTWARE 21
>3tgn_A ADC operon repressor ADCR; helix-turn-helix, transcriptional
regulator, transcription; 2.00A {Streptococcus
pneumoniae}
Length = 146
Score = 32.5 bits (74), Expect = 0.15
Identities = 5/52 (9%), Positives = 17/52 (32%), Gaps = 2/52 (3%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAA--DERCEGFSGADLEQLVK 199
+ +D + I LT + + ++ F+ + + + +
Sbjct: 85 KDSKDARVIFYQLTDLARPIAEEHHHHHEHTLLTYEQVATQFTPNEQKVIQR 136
>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 = 33.5 bits (76), Expect = 0.15
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 18 VLLCGPPGCGKTLLAKAVANE 38
+L G PG GK+ A+ +
Sbjct: 5 ILTIGCPGSGKSTWAREFIAK 25
>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase,
translation; HET: ADP; 2.05A {Sulfolobus solfataricus}
Length = 538
Score = 33.5 bits (77), Expect = 0.17
Identities = 16/45 (35%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 8 KLFGKSTP-SG--VLLCGPPGCGKTLLAKAVANEAGINFISVKGP 49
KLFG TP + + + G G GKT + K +A E NF
Sbjct: 15 KLFGLPTPKNNTILGVLGKNGVGKTTVLKILAGEIIPNFGDPNSK 59
>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 = 32.5 bits (75), Expect = 0.17
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFI 44
+ + G GCG T + + +A G F+
Sbjct: 5 IFMVGARGCGMTTVGRELARALGYEFV 31
>3nqo_A MARR-family transcriptional regulator; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI-2; HET: MSE PG4; 2.20A {Clostridium
difficile}
Length = 189
Score = 32.5 bits (74), Expect = 0.18
Identities = 15/93 (16%), Positives = 34/93 (36%), Gaps = 7/93 (7%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVKEAREQAILEI 209
P+ D++ I + +T GK +M + F+ +LE L +L+
Sbjct: 91 PSPHDKRAINVKVTDLGKK-VMVTCSRTGINFMADVFHEFTKDELETLWS------LLKK 143
Query: 210 VNSVENDDQAGIDDTEQVTIGFRHFDIALKRIK 242
+ ++Q G ++ I + ++
Sbjct: 144 MYRFNGEEQDGFEEDANFMEYEEIDKIKSEALE 176
>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 = 33.3 bits (77), Expect = 0.19
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINF 43
+LL G PG KTL +A ++F
Sbjct: 49 ILLEGVPGLAKTLSVNTLAKTMDLDF 74
>3ug3_A Alpha-L-arabinofuranosidase; TIM barrel, hydrolase; 1.80A
{Thermotoga maritima} PDB: 3ug4_A* 3ug5_A* 3s2c_A 4atw_A
Length = 504
Score = 33.3 bits (75), Expect = 0.19
Identities = 24/128 (18%), Positives = 42/128 (32%), Gaps = 9/128 (7%)
Query: 129 DIIDPAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDKI--AAD--E 184
D I P RP RFD N E + + G +P + ++ + A E
Sbjct: 100 DGIGPKDQRPVRFDLAWQQEETNRFGTDEFIEYCREIGAEPYISINMGTGTLDEALHWLE 159
Query: 185 RCEGFSGADLEQLVKEAREQA-----ILEIVNSVENDDQAGIDDTEQVTIGFRHFDIALK 239
C G QL ++ I N + + Q G ++ + + +K
Sbjct: 160 YCNGKGNTYYAQLRRKYGHPEPYNVKFWGIGNEMYGEWQVGHMTADEYARAAKEYTKWMK 219
Query: 240 RIKPSVSK 247
P++
Sbjct: 220 VFDPTIKA 227
>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 = 33.4 bits (76), Expect = 0.23
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 16 SGVLLCGPPGCGKTLLA 32
L+ G G GKTL +
Sbjct: 40 RSTLVSGTSGTGKTLFS 56
Score = 32.6 bits (74), Expect = 0.37
Identities = 10/24 (41%), Positives = 11/24 (45%)
Query: 16 SGVLLCGPPGCGKTLLAKAVANEA 39
S +L G G GKTLL A
Sbjct: 282 SIILATGATGTGKTLLVSRFVENA 305
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 33.0 bits (75), Expect = 0.25
Identities = 21/81 (25%), Positives = 36/81 (44%), Gaps = 6/81 (7%)
Query: 11 GKSTPSGVLLCGPPGCGKTLLAKAVANEAG--INFISVKGPELLNMYLGESERAVRQCFQ 68
GK VL+ G PG GKT +A +A G F ++ G E+ ++ + ++E + +
Sbjct: 66 GKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEALTQAFRR 125
Query: 69 ----RARNSQPCVIFFDEIDA 85
R + + EID
Sbjct: 126 SIGVRIKAGAVHTVSLHEIDV 146
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 32.4 bits (73), Expect = 0.25
Identities = 38/208 (18%), Positives = 62/208 (29%), Gaps = 35/208 (16%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGES-ERAVRQCFQRARNSQPC 76
V L GPPG GKT L + + + V G Y E + R F
Sbjct: 4 VFLTGPPGVGKTTLIHKASEVLKSSGVPVDG-----FYTEEVRQGGRRIGFD-------- 50
Query: 77 VIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGGVFLMAATNRPD------I 130
V+ + V Q + ++ FE L A +
Sbjct: 51 VVTLSGTRGPLSRVGLEPPPGKRECRVGQYVVDLTSFEQLALPVLRNADCSSGPGQRVCV 110
Query: 131 ID---PAVMRPGRFDRILFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCE 187
ID + F + + L IL + P ++I + +
Sbjct: 111 IDEIGKMELFSQLFIQAVRQTL--STPGTIILGTIPVPKGKP----LALVEEIRNRKDVK 164
Query: 188 GFSGADLEQLVKEAREQAILEIVNSVEN 215
F+ + KE R + +IV V++
Sbjct: 165 VFN------VTKENRNHLLPDIVTCVQS 186
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 32.6 bits (74), Expect = 0.26
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 16 SGVLLCGPPGCGKTLLA 32
+ VLL G G GKT A
Sbjct: 31 TTVLLTGGTGTGKTTFA 47
>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG,
structural genomics, midwest center for structural
genomics; HET: AMP; 2.30A {Sulfolobus solfataricus}
PDB: 3h0k_A
Length = 179
Score = 32.1 bits (73), Expect = 0.27
Identities = 17/84 (20%), Positives = 29/84 (34%), Gaps = 19/84 (22%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFIS--------VKGPELLNMYLGESERAVRQ---- 65
+L+ G PG GK+ AK + E G I L + + +R+
Sbjct: 4 ILITGMPGSGKSEFAK-LLKERGAKVIVMSDVVRKRYSIEAKPGERLMDFAKRLREIYGD 62
Query: 66 ------CFQRARNSQPCVIFFDEI 83
C + S ++ FD +
Sbjct: 63 GVVARLCVEELGTSNHDLVVFDGV 86
>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 353
Score = 32.9 bits (75), Expect = 0.27
Identities = 23/92 (25%), Positives = 35/92 (38%), Gaps = 30/92 (32%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGE----SER------------ 61
+L GPPG GKT A+ E + GP+L+ + E ER
Sbjct: 61 MLFYGPPGTGKTSTILALTKE-------LYGPDLMKSRILELNASDERGISIVREKVKNF 113
Query: 62 ---AVRQCFQRARNSQPC----VIFFDEIDAL 86
V + + + PC +I DE D++
Sbjct: 114 ARLTVSKPSKHDLENYPCPPYKIIILDEADSM 145
>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 = 32.2 bits (74), Expect = 0.28
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFI 44
+L G PG GK+ + + +A G+ +
Sbjct: 5 AVLVGLPGSGKSTIGRRLAKALGVGLL 31
>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop
kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex
aeolicus}
Length = 168
Score = 31.7 bits (73), Expect = 0.31
Identities = 6/27 (22%), Positives = 11/27 (40%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFI 44
+ L G GK+ + ++ I F
Sbjct: 3 IYLIGFMCSGKSTVGSLLSRSLNIPFY 29
>3fdi_A Uncharacterized protein; cytidylate kinase like protein, PSI,
MCSG, PRK04182 class ME structural genomics, protein
structure initiative; 2.20A {Eubacterium ventriosum}
Length = 201
Score = 31.9 bits (72), Expect = 0.31
Identities = 10/52 (19%), Positives = 20/52 (38%)
Query: 22 GPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERAVRQCFQRARNS 73
G G L+AK +A I S + + + S+ + + ++ N
Sbjct: 13 REFGSGGHLVAKKLAEHYNIPLYSKELLDEVAKDGRYSKEVLERFDEKPMNF 64
>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex,
transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}
Length = 460
Score = 32.8 bits (74), Expect = 0.32
Identities = 9/43 (20%), Positives = 19/43 (44%), Gaps = 2/43 (4%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESE 60
V++ G GKT L++ + + A + P +N+ +
Sbjct: 141 VVIVGGSQTGKTSLSRTLCSYALKF--NAYQPLYINLDPQQPI 181
>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A
{Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB:
1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*
Length = 334
Score = 32.4 bits (74), Expect = 0.33
Identities = 6/18 (33%), Positives = 9/18 (50%)
Query: 19 LLCGPPGCGKTLLAKAVA 36
L+ PG G L A++
Sbjct: 28 LIQALPGMGDDALIYALS 45
>3bja_A Transcriptional regulator, MARR family, putative; NP_978771.1,
putative MARR-like transcription regulator, MAR
structural genomics; 2.38A {Bacillus cereus}
Length = 139
Score = 31.1 bits (71), Expect = 0.35
Identities = 12/49 (24%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLV 198
N D++E L+ LTK+G++ + E C F+ + L
Sbjct: 81 KNPNDQRETLVYLTKKGEE-TKKQVDVQYSDFLKENCGCFTKEEEGILE 128
>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 = 32.3 bits (73), Expect = 0.36
Identities = 9/28 (32%), Positives = 11/28 (39%)
Query: 10 FGKSTPSGVLLCGPPGCGKTLLAKAVAN 37
K V + GP G G T L K +
Sbjct: 40 AIKEKKHHVTINGPAGTGATTLTKFIIE 67
>2nyx_A Probable transcriptional regulatory protein, RV14; alpha/beta,
structural genomics, PSI-2; 2.30A {Mycobacterium
tuberculosis}
Length = 168
Score = 31.4 bits (71), Expect = 0.38
Identities = 16/71 (22%), Positives = 29/71 (40%), Gaps = 7/71 (9%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVKEAREQAILEI 209
P+ R+E+L ALTK+G+D ++ + + + E + A+ LV L
Sbjct: 93 PHPTSRRELLAALTKRGRD-VVRQVTEHRRTEIARIVEQMAPAERHGLV------RALTA 145
Query: 210 VNSVENDDQAG 220
+ A
Sbjct: 146 FTEAGGEPDAR 156
>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI,
protein structure initiative; 1.90A {Geobacillus
stearothermophilus} SCOP: c.37.1.6
Length = 201
Score = 31.5 bits (72), Expect = 0.40
Identities = 9/29 (31%), Positives = 13/29 (44%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISV 46
+ + G GKT LA ++ ISV
Sbjct: 25 LGIDGLSRSGKTTLANQLSQTLREQGISV 53
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 31.4 bits (72), Expect = 0.40
Identities = 7/27 (25%), Positives = 10/27 (37%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFI 44
+ L G G GKT + +A
Sbjct: 8 IYLIGLMGAGKTSVGSQLAKLTKRILY 34
>3bro_A Transcriptional regulator; helix_TURN_helix, multiple antibiotic
resistance protein (MA structural genomics, PSI-2,
protein structure initiative; HET: MSE; 2.04A
{Oenococcus oeni} SCOP: a.4.5.28
Length = 141
Score = 31.2 bits (71), Expect = 0.41
Identities = 8/50 (16%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
+ +D ++ L LTK+ + + + + G + ++ L K
Sbjct: 84 VSGKDSRQKCLKLTKKANK-LETIILSYMDSDQSQMTSGLNKEEVVFLEK 132
>2eth_A Transcriptional regulator, putative, MAR family; MARR family,
structural genomics, joint center for structura
genomics, JCSG; 2.30A {Thermotoga maritima} SCOP:
a.4.5.28
Length = 154
Score = 31.2 bits (71), Expect = 0.46
Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
+ DR+ + LT++GK+ + GE + + E FS D + + +
Sbjct: 92 MDPVDRRTYRVVLTEKGKE-IFGEILSNFESLLKSVLEKFSEEDFKVVSE 140
>3bj6_A Transcriptional regulator, MARR family; helix-turn-helix,
trasnscription regulator, STR genomics, PSI-2, protein
structure initiative; 2.01A {Silicibacter pomeroyi
dss-3}
Length = 152
Score = 30.8 bits (70), Expect = 0.50
Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 3/51 (5%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADER-CEGFSGADLEQLVK 199
N + + LT +G+ + + D++A EGFS +L K
Sbjct: 88 TNPEHARSHRYWLTPRGEA--IITAIRADEMAKLALFSEGFSSVELTAYHK 136
>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 = 31.0 bits (71), Expect = 0.51
Identities = 8/27 (29%), Positives = 15/27 (55%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFI 44
+ L GP G GK+ + + +A + + F
Sbjct: 7 IFLVGPMGAGKSTIGRQLAQQLNMEFY 33
>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp
loader, sliding clamp, primer-TEM DNA, DNA binding
protein-DNA complex; HET: DNA ADP 08T; 3.20A
{Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*
Length = 324
Score = 31.5 bits (72), Expect = 0.58
Identities = 21/77 (27%), Positives = 32/77 (41%), Gaps = 17/77 (22%)
Query: 18 VLLCGP-PGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESER--AVRQ---CFQRAR 71
++L P PG GKT +AKA+ ++ + + +N G + VR F A
Sbjct: 50 IILHSPSPGTGKTTVAKALCHDVNADMM------FVN---GSDCKIDFVRGPLTNFASAA 100
Query: 72 NSQPC--VIFFDEIDAL 86
+ VI DE D
Sbjct: 101 SFDGRQKVIVIDEFDRS 117
>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural
genomics, MI center for structural genomics, MCSG,
unknown function; 1.78A {Listeria innocua}
Length = 143
Score = 30.7 bits (70), Expect = 0.58
Identities = 14/50 (28%), Positives = 25/50 (50%), Gaps = 1/50 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
+ +DR+ LL+LT +G+ E D + + ++ G + DLEQ
Sbjct: 85 ISTEDRRISLLSLTDKGR-KETTELRDIVEASCEKMFAGVTRTDLEQFTA 133
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase,
shikimat ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 31.3 bits (71), Expect = 0.62
Identities = 14/38 (36%), Positives = 18/38 (47%), Gaps = 4/38 (10%)
Query: 7 PKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFI 44
P L G+S + L G G GKT + K +A G F
Sbjct: 44 PYLNGRS----MYLVGMMGSGKTTVGKIMARSLGYTFF 77
>1lj9_A Transcriptional regulator SLYA; HTH DNA binding protein, structural
genomics, PSI, protein structure initiative; 1.60A
{Enterococcus faecalis} SCOP: a.4.5.28
Length = 144
Score = 30.4 bits (69), Expect = 0.65
Identities = 9/50 (18%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
+ ++K + T++GK + V ++ + +G S ++ QL
Sbjct: 77 EDASNKKIKRIYATEKGK-NVYPIIVRENQHSNQVALQGLSEVEISQLAD 125
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 31.9 bits (71), Expect = 0.67
Identities = 12/82 (14%), Positives = 24/82 (29%), Gaps = 5/82 (6%)
Query: 3 PVKYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERA 62
P PK F + C C I I ++ + + +
Sbjct: 617 PHPKPKQFSSFEKRAKIFCARQNCSHDWGIHVKYKTFEIPVIKIE-----SFVVEDIATG 671
Query: 63 VRQCFQRARNSQPCVIFFDEID 84
V+ + + ++ I FD +
Sbjct: 672 VQTLYSKWKDFHFEKIPFDPAE 693
>3s2w_A Transcriptional regulator, MARR family; structural genomics,
PSI-biology, protein structure initiati midwest center
for structural genomics; 2.45A {Methanosarcina mazei}
Length = 159
Score = 30.4 bits (69), Expect = 0.69
Identities = 10/53 (18%), Positives = 21/53 (39%), Gaps = 7/53 (13%)
Query: 150 PNEQDRKEILLALTKQGK---DPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
+E+DR+ + LT++GK M ++ +I F ++
Sbjct: 98 RDEKDRRSYRVFLTEKGKKLEPDMKKIASEWGEIL----FSSFDDRQRREITN 146
>1jgs_A Multiple antibiotic resistance protein MARR; transcription
regulation, DNA-binding, repressor, transcription; HET:
SAL; 2.30A {Escherichia coli} SCOP: a.4.5.28
Length = 138
Score = 30.4 bits (69), Expect = 0.70
Identities = 13/72 (18%), Positives = 25/72 (34%), Gaps = 5/72 (6%)
Query: 131 IDPAVMRPGRFDRI----LFVNLPNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERC 186
+D + DR+ LPN D++ +L+ LT G + E
Sbjct: 60 VDLGALT-RMLDRLVCKGWVERLPNPNDKRGVLVKLTTGGAAICEQCHQLVGQDLHQELT 118
Query: 187 EGFSGADLEQLV 198
+ + ++ L
Sbjct: 119 KNLTADEVATLE 130
>3bpv_A Transcriptional regulator; MARR, DNA binding, transcription factor,
winged helix motif, DNA-binding; 1.40A {Methanobacterium
thermoautotrophicum} PDB: 3bpx_A*
Length = 138
Score = 30.3 bits (69), Expect = 0.73
Identities = 6/53 (11%), Positives = 24/53 (45%), Gaps = 7/53 (13%)
Query: 150 PNEQDRKEILLALTKQGK---DPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
+ ++R+ +L +T++G+ ++ + ++ + F+ + + K
Sbjct: 77 QDPENRRRYILEVTRRGEEIIPLILKVEERWEDLL----FRDFTEDERKLFRK 125
>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 = 31.8 bits (73), Expect = 0.76
Identities = 24/85 (28%), Positives = 33/85 (38%), Gaps = 32/85 (37%)
Query: 15 PSGVLL-CGPPGCGKTLLAKAVAN------EAGINF--------ISVKGPELLNMYLGES 59
P G + GP G GKT LA+A+A E+ I S G +L +
Sbjct: 520 PIGSFIFLGPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKHSTSGGQL-------T 572
Query: 60 ERAVRQCFQRARNSQP-CVIFFDEI 83
E VR+ +P V+ D I
Sbjct: 573 E-KVRR--------KPYSVVLLDAI 588
>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding
HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens}
SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A*
1xrj_A*
Length = 252
Score = 31.0 bits (70), Expect = 0.77
Identities = 6/38 (15%), Positives = 13/38 (34%)
Query: 12 KSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGP 49
P + + G GK+ + + G N + +
Sbjct: 19 GGEPFLIGVSGGTASGKSSVCAKIVQLLGQNEVDYRQK 56
>2fbh_A Transcriptional regulator PA3341; MARR, transcription regulator,
APC5857, structural genomics, protein structure
initiative; 1.80A {Pseudomonas aeruginosa} SCOP:
a.4.5.28
Length = 146
Score = 30.4 bits (69), Expect = 0.79
Identities = 6/51 (11%), Positives = 17/51 (33%), Gaps = 3/51 (5%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADER-CEGFSGADLEQLVK 199
+DR+ + LT + + D++ + G ++ +
Sbjct: 86 AVAEDRRAKHIVLTPKADV--LIADIEAIAASVRNDVLTGIDESEQALCQQ 134
>3jw4_A Transcriptional regulator, MARR/EMRR family; DNA-binding protein,
structural genomics, PSI-2, protein structure
initiative; HET: MSE; 2.10A {Clostridium acetobutylicum}
Length = 148
Score = 30.4 bits (69), Expect = 0.80
Identities = 5/53 (9%), Positives = 21/53 (39%), Gaps = 7/53 (13%)
Query: 150 PNEQDRKEILLALTKQGK---DPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
E + ++ + + +G + ++ ++ +G + + +QL+
Sbjct: 91 IPENNARQKNIYVLPKGAALVEEFNNIFLEVEESI----TKGLTKDEQKQLMS 139
>1xdi_A RV3303C-LPDA; reductase, FAD, NAD, NADP, unkno function; HET: FAD;
2.81A {Mycobacterium tuberculosis} SCOP: c.3.1.5
d.87.1.1
Length = 499
Score = 31.4 bits (72), Expect = 0.85
Identities = 7/38 (18%), Positives = 17/38 (44%)
Query: 316 KVEVKMDTTCTNLEFLEKGVKVTLNNDQHIEANHVVSA 353
V + + ++ GV VT+ + + +E +H +
Sbjct: 237 GVRLFKNARAASVTRTGAGVLVTMTDGRTVEGSHALMT 274
>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 = 31.0 bits (70), Expect = 0.88
Identities = 12/41 (29%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 8 KLFGKSTP--SGVLLCGPPGCGKTLLAKAVANEAGINFISV 46
KL+ K P + + GPP GK++L ++ + G + +S
Sbjct: 117 KLWLKGIPKKNCLAFIGPPNTGKSMLCNSLIHFLGGSVLSF 157
>3g3z_A NMB1585, transcriptional regulator, MARR family; transcription
factor, structur genomics, oxford protein production
facility; 2.10A {Neisseria meningitidis serogroup B}
Length = 145
Score = 30.1 bits (68), Expect = 0.91
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
EQDR++ LL+LT+ GK + + +D+ F +L
Sbjct: 79 EGEQDRRKRLLSLTETGKA-YAAPLTESAQEFSDKVFATFGDKRTTRLFA 127
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 31.3 bits (71), Expect = 0.96
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 9/38 (23%)
Query: 18 VLLCGPPGCGKTLLAKAVAN---------EAGINFISV 46
V + G GCGK++LA G++++S+
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSI 187
>3nrv_A Putative transcriptional regulator (MARR/EMRR FAM; PSI-2, protein
structure initiati structural genomics; HET: MSE; 2.00A
{Acinetobacter SP}
Length = 148
Score = 30.0 bits (68), Expect = 1.0
Identities = 11/49 (22%), Positives = 23/49 (46%), Gaps = 1/49 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLV 198
+ +D++ + LT+ G++ + DF + E F A+ +QL
Sbjct: 88 GHSEDKRTYAINLTEMGQE-LYEVASDFAIEREKQLLEEFEEAEKDQLF 135
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 30.8 bits (69), Expect = 1.1
Identities = 14/99 (14%), Positives = 25/99 (25%), Gaps = 29/99 (29%)
Query: 18 VLLCGPPGCGKTLLAKAVANE-------------AGINFISVKGPELLNM---------- 54
V+L G PG GK+ +A+ + I P + +
Sbjct: 27 VILVGSPGSGKSTIAEELCQIINEKYHTFLSEHPNVIEVNDRLKPMVNLVDSLKTLQPNK 86
Query: 55 ------YLGESERAVRQCFQRARNSQPCVIFFDEIDALC 87
G + V + +E A+
Sbjct: 87 VAEMIENQGLFKDHVEDVNFQPVKYSALTSNNEECTAVV 125
Score = 28.5 bits (63), Expect = 6.2
Identities = 5/25 (20%), Positives = 8/25 (32%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGIN 42
+ G + AV N +N
Sbjct: 122 TAVVARGGTANAIRIAAVDNPVNVN 146
>3kp7_A Transcriptional regulator TCAR; multiple drug resistance, biofilm,
transcription regulation, binding, transcription
regulator; 2.30A {Staphylococcus epidermidis RP62A} PDB:
3kp3_A* 3kp4_A* 3kp5_A* 3kp2_A* 3kp6_A
Length = 151
Score = 29.8 bits (67), Expect = 1.3
Identities = 8/50 (16%), Positives = 22/50 (44%), Gaps = 1/50 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
+ D++ ++ L+ +GK + E A + F ++E++ +
Sbjct: 87 DSNTDQRLKIIKLSNKGKK-YIKERKAIMSHIASDMTSDFDSKEIEKVRQ 135
>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 = 1.3
Identities = 19/98 (19%), Positives = 35/98 (35%), Gaps = 17/98 (17%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINF--ISVKGPELLNMYLGESERAVRQCFQRARNSQP 75
V + GP G GKT K +A + N + ++ + G + F+R +N +
Sbjct: 120 VGIVGPNGTGKTTAVKILAGQLIPNLCEDNDSWDNVIRAFRGNELQNY---FERLKNGEI 176
Query: 76 CVIFFDEIDALCPKRSSLGDNNSSMRI--VNQLLTEMD 111
+ + D V +LL ++D
Sbjct: 177 RPVV----------KPQYVDLLPKAVKGKVRELLKKVD 204
>3eco_A MEPR; mutlidrug efflux pump regulator winged helix-turn-helix
motif, DNA-binding, transcription, transcription
regulation; 2.40A {Staphylococcus aureus}
Length = 139
Score = 29.6 bits (67), Expect = 1.4
Identities = 9/51 (17%), Positives = 17/51 (33%), Gaps = 3/51 (5%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERC-EGFSGADLEQLVK 199
+ QD + + LT G + E ++ S + EQ+
Sbjct: 81 VDAQDTRRKNIGLTTSGIK--LVEAFTSIFDEMEQTLVSQLSEEENEQMKA 129
>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 = 30.7 bits (69), Expect = 1.5
Identities = 6/20 (30%), Positives = 11/20 (55%)
Query: 18 VLLCGPPGCGKTLLAKAVAN 37
+ L G G GK+++A +
Sbjct: 155 LFLHGRAGSGKSVIASQALS 174
>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis,
hydrolyase/translation complex; HET: ADP; 1.90A
{Pyrococcus furiosus}
Length = 538
Score = 30.3 bits (69), Expect = 1.5
Identities = 16/75 (21%), Positives = 26/75 (34%), Gaps = 14/75 (18%)
Query: 8 KLFGKSTP-SG--VLLCGPPGCGKTLLAKAVANEAGINF-----------ISVKGPELLN 53
L+ G V + GP G GK+ K +A + N + +G EL N
Sbjct: 37 VLYRLPVVKEGMVVGIVGPNGTGKSTAVKILAGQLIPNLCGDNDSWDGVIRAFRGNELQN 96
Query: 54 MYLGESERAVRQCFQ 68
+ +R +
Sbjct: 97 YFEKLKNGEIRPVVK 111
>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding,
nucleoside kinase, nucleotide-binding; 2.50A {Homo
sapiens} PDB: 2uvq_A*
Length = 245
Score = 30.1 bits (68), Expect = 1.6
Identities = 5/32 (15%), Positives = 13/32 (40%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGP 49
+ + G GK+ + + + G N + +
Sbjct: 28 IGVSGGTASGKSTVCEKIMELLGQNEVEQRQR 59
>1wkc_A HB8 TT1367 protein; structural genomics, riken structural
genomics/proteomi initiative, RSGI, unknown function;
1.70A {Thermus thermophilus} SCOP: c.124.1.6
Length = 184
Score = 29.5 bits (67), Expect = 1.6
Identities = 12/59 (20%), Positives = 18/59 (30%), Gaps = 16/59 (27%)
Query: 393 PMKQNAFGFLVPPREKLPIL--------GVVFDSCCFEQADWTILTVMMGGAWYDTYFK 443
P+ FG L P G+ FD + + G +YD + K
Sbjct: 82 PLAPGPFGLLEPTTPPEDPRVLDLVVVPGLAFDREGY--------RLGHGQGFYDRFLK 132
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 29.5 bits (66), Expect = 1.9
Identities = 12/52 (23%), Positives = 18/52 (34%), Gaps = 2/52 (3%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERAVRQCFQR 69
+ + GP G GKT A + + V PE + L + Q
Sbjct: 8 IWINGPFGVGKTHTAHTLH--ERLPGSFVFEPEEMGQALRKLTPGFSGDPQE 57
>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system
kinase, STRU genomics, joint center for structural
genomics, JCSG; 1.95A {Silicibacter SP}
Length = 208
Score = 29.7 bits (67), Expect = 1.9
Identities = 14/55 (25%), Positives = 21/55 (38%), Gaps = 6/55 (10%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNM---YLGESERAVRQCFQR 69
V L G PG GK+ L+ +A + E++ M +L R R
Sbjct: 25 VALSGAPGSGKSTLSNPLAAALSAQGLPA---EVVPMDGFHLDNRLLEPRGLLPR 76
>3ech_A MEXR, multidrug resistance operon repressor; winged helix,
helix-turn-helix, protein-peptide complex; 1.80A
{Pseudomonas aeruginosa} PDB: 1lnw_A 3mex_A
Length = 142
Score = 28.9 bits (65), Expect = 1.9
Identities = 10/50 (20%), Positives = 16/50 (32%), Gaps = 1/50 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
N D++ L LT +G + DE + + LV
Sbjct: 85 RNPSDQRSFQLFLTDEGLA-IHLHAELIMSRVHDELFAPLTPVEQATLVH 133
>3c5i_A Choline kinase; choline, kinase, malaria, transferase, structural
genomics, structural genomics consortium; 2.20A
{Plasmodium knowlesi} PDB: 3fi8_A*
Length = 369
Score = 29.9 bits (66), Expect = 1.9
Identities = 21/105 (20%), Positives = 31/105 (29%), Gaps = 17/105 (16%)
Query: 211 NSVENDDQAGIDDTEQVTIGFRHFDIA---------LKRIKPSVSKADCKNYESLKQR-- 259
N + + + D E F DIA + D K Y S + R
Sbjct: 223 NIINTNKCLRLIDFEYSGFNFLATDIANFFIETSIDYSVSSYPFFEIDKKKYISYENRKL 282
Query: 260 ----YTTPGAIKEMMSKRPDLSG--YEESELYRRSRIEKWSVWSV 298
Y + K ++ P L E E+ W WS+
Sbjct: 283 FITAYLSNYLDKSLVVPTPKLIDEILEAVEVQALGAHLLWGFWSI 327
>2qww_A Transcriptional regulator, MARR family; YP_013417.1, multiple
antibiotic-resistance repressor (MARR) structural
genomics; HET: MSE; 2.07A {Listeria monocytogenes str}
Length = 154
Score = 29.1 bits (65), Expect = 2.0
Identities = 8/53 (15%), Positives = 22/53 (41%), Gaps = 5/53 (9%)
Query: 150 PNEQDRKEILLALTKQGK---DPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
D ++ L L+K+G+ + + + E + ++E+L++
Sbjct: 91 TIPNDSMDLTLKLSKKGEDLSKRSTANAFMYKAM--MKVFENLTENEIEELIR 141
>3deu_A Transcriptional regulator SLYA; MARR, WING-helix, transcription
regulator, activator, DNA-binding, repressor; HET: SAL;
2.30A {Salmonella typhimurium} SCOP: a.4.5.28 PDB:
3qpt_A* 3q5f_A*
Length = 166
Score = 29.3 bits (66), Expect = 2.0
Identities = 9/51 (17%), Positives = 21/51 (41%), Gaps = 3/51 (5%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADER-CEGFSGADLEQLVK 199
DR+ + LT++ + + +++ G S ++E L+K
Sbjct: 102 TCASDRRAKRIKLTEKAEP--LIAEMEEVIHKTRGEILAGISSEEIELLIK 150
>3cjn_A Transcriptional regulator, MARR family; silicibacter pomeroy
structural genomics, PSI-2, protein structure
initiative; 1.95A {Silicibacter pomeroyi dss-3}
Length = 162
Score = 29.3 bits (66), Expect = 2.1
Identities = 7/50 (14%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADER-CEGFSGADLEQLV 198
+ D++ + LT G+ + + + A+ +R +G + + + +
Sbjct: 100 VDSDDQRSSRVYLTPAGRA--VYDRLWPHMRASHDRMFQGITPQERQAFL 147
>3mes_A Choline kinase; malaria, structural genomics, structural genomics
consortium, SGC, transferase; HET: ADP DME PT3; 2.35A
{Cryptosporidium parvum}
Length = 424
Score = 30.0 bits (66), Expect = 2.1
Identities = 18/104 (17%), Positives = 36/104 (34%), Gaps = 16/104 (15%)
Query: 211 NSVENDDQAGIDDTEQVTIGFRHFDIAL---------KRIKPSVSKADCKNYESLKQR-- 259
N ++ + + D E I F DIA K K ++Y + R
Sbjct: 273 NLLQTQNNIRMIDYEYSAINFAGADIANYFCEYIYDYCSEKQPYFKFKYEDYPCEELRKL 332
Query: 260 ----YTTPGAIKEMMSKRPDL-SGYEESELYRRSRIEKWSVWSV 298
Y + +++M + + + E++ W +WS+
Sbjct: 333 FISVYLSQTLQEQVMPSQQIVHIMTKAVEVFTLISHITWGLWSI 376
>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 = 29.5 bits (66), Expect = 2.3
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 18 VLLCGPPGCGKTLLAKAVAN 37
+ L GP GKT +A+A+A+
Sbjct: 107 IWLFGPATTGKTNIAEAIAH 126
>3co5_A Putative two-component system transcriptional RES regulator;
structural genomics, APC89341.1; 2.40A {Neisseria
gonorrhoeae}
Length = 143
Score = 28.7 bits (65), Expect = 2.3
Identities = 6/22 (27%), Positives = 8/22 (36%)
Query: 14 TPSGVLLCGPPGCGKTLLAKAV 35
S V L G G +A+
Sbjct: 26 RTSPVFLTGEAGSPFETVARYF 47
>1m6i_A Programmed cell death protein 8; apoptosis, AIF, oxidoreductase;
HET: FAD; 1.80A {Homo sapiens} SCOP: c.3.1.5 c.3.1.5
d.87.1.1 PDB: 3gd3_A* 3gd4_A* 1gv4_A*
Length = 493
Score = 30.1 bits (68), Expect = 2.4
Identities = 6/40 (15%), Positives = 17/40 (42%)
Query: 312 HLSNKVEVKMDTTCTNLEFLEKGVKVTLNNDQHIEANHVV 351
V+V + ++ + + L + + +E +H+V
Sbjct: 236 VRREGVKVMPNAIVQSVGVSSGKLLIKLKDGRKVETDHIV 275
>1s3j_A YUSO protein; structural genomics, MARR transcriptional regulator
family, PSI, protein structure initiative; HET: MSE;
2.25A {Bacillus subtilis} SCOP: a.4.5.28
Length = 155
Score = 28.9 bits (65), Expect = 2.4
Identities = 14/77 (18%), Positives = 27/77 (35%), Gaps = 8/77 (10%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVKEAREQAILE- 208
N +DR+ I L+LT +G E + K + ++ Q I
Sbjct: 85 HNTKDRRVIDLSLTDEGDI-KFEEVLAGRKAIMARYLSFLTEEEMLQAA------HITAK 137
Query: 209 IVNSVENDDQAGIDDTE 225
+ + E D++ +
Sbjct: 138 LAQAAETDEKQNMKRGN 154
>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 = 29.8 bits (67), Expect = 2.5
Identities = 8/21 (38%), Positives = 10/21 (47%)
Query: 18 VLLCGPPGCGKTLLAKAVANE 38
+LL GP G GK A+
Sbjct: 39 LLLYGPNGTGKKTRCMALLES 59
>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 = 2.6
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 14 TPSGVLLCGPPGCGKTLLAKAV 35
T V L G PG G+ A+ +
Sbjct: 23 TDIAVWLYGAPGTGRMTGARYL 44
>3u2r_A Regulatory protein MARR; structural genomics, PSI-biology, midwest
center for structu genomics, MCSG, helix-turn-helix;
2.20A {Planctomyces limnophilus}
Length = 168
Score = 28.9 bits (65), Expect = 2.7
Identities = 10/49 (20%), Positives = 22/49 (44%), Gaps = 3/49 (6%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERC-EGFSGADLEQL 197
++R+ + +ALT G + +D++ ER + +L +L
Sbjct: 96 RKPENRRVVEVALTDAGLKLL--KDLEEPVRQCHERQLGHLAADELHEL 142
>2h92_A Cytidylate kinase; rossmann fold, transferase; HET: C5P PG4;
2.30A {Staphylococcus aureus}
Length = 219
Score = 29.3 bits (67), Expect = 2.8
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 22 GPPGCGKTLLAKAVANEAGINFI 44
GP GK+ +AK VA+E + ++
Sbjct: 10 GPAAAGKSTIAKRVASELSMIYV 32
>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase,
transferase; NMR {Streptococcus pneumoniae} SCOP:
c.37.1.1
Length = 236
Score = 29.0 bits (66), Expect = 3.0
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 22 GPPGCGKTLLAKAVANEAGINFI 44
GP GK+ +AK +A + G ++
Sbjct: 23 GPASSGKSTVAKIIAKDFGFTYL 45
>3r20_A Cytidylate kinase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid, ADP,
DCMP, D transferase; 2.00A {Mycobacterium smegmatis}
PDB: 3r8c_A 4die_A*
Length = 233
Score = 29.0 bits (66), Expect = 3.1
Identities = 7/23 (30%), Positives = 14/23 (60%)
Query: 22 GPPGCGKTLLAKAVANEAGINFI 44
GP G GK+ +++ +A G ++
Sbjct: 16 GPAGTGKSSVSRGLARALGARYL 38
>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA
helicase, acetyltransferase, GCN5 acetyltransferase;
HET: ACO ADP; 2.35A {Escherichia coli K12}
Length = 671
Score = 29.6 bits (66), Expect = 3.2
Identities = 26/117 (22%), Positives = 45/117 (38%), Gaps = 7/117 (5%)
Query: 10 FGKSTPSGVLLCGPPGCGKT-LLAKAVANEAGINFI---SVKGPELLNMYLGESERAVRQ 65
P + G GK+ L + ++ AG + + ++L + GE R +
Sbjct: 187 LMTMPPGVAAVTAARGRGKSALAGQLISRIAGRAIVTAPAKASTDVLAQFAGEKFRFIAP 246
Query: 66 CFQRARNSQPCVIFFDEIDALCPKRSSLGDNNSSMRIVNQLLTEMDGFEGRGGVFLM 122
A + Q + DE A+ P + R + L T + G+EG G FL+
Sbjct: 247 DALLASDEQADWLVVDEAAAI-PAPLLHQLVSRFPRTL--LTTTVQGYEGTGRGFLL 300
>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P;
2.25A {Thermus thermophilus} PDB: 3asy_A*
Length = 211
Score = 29.1 bits (66), Expect = 3.2
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGIN 42
+ + G GKT LA+A+A G
Sbjct: 9 IGIAGGTASGKTTLAQALARTLGER 33
>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding,
nucleotide-binding, nucleotidyltransferase, tRNA
processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A
3crr_A
Length = 323
Score = 29.4 bits (67), Expect = 3.3
Identities = 15/34 (44%), Positives = 18/34 (52%)
Query: 13 STPSGVLLCGPPGCGKTLLAKAVANEAGINFISV 46
S P + L GP GKT LA A+A+ ISV
Sbjct: 3 SLPPAIFLMGPTAAGKTDLAMALADALPCELISV 36
>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide
monophosphate kinase,, transferase; 1.75A {Escherichia
coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A*
1kdt_A* 2cmk_A* 2fem_A 2feo_A*
Length = 227
Score = 29.0 bits (66), Expect = 3.4
Identities = 9/23 (39%), Positives = 12/23 (52%)
Query: 22 GPPGCGKTLLAKAVANEAGINFI 44
GP G GK L KA+A + +
Sbjct: 12 GPSGAGKGTLCKAMAEALQWHLL 34
>2yqu_A 2-oxoglutarate dehydrogenase E3 component; lipoamide dehydrogenase,
2-oxoglutarate dehydrogenase comple pyruvate
dehydrogenase complex; HET: FAD; 1.70A {Thermus
thermophilus} PDB: 2eq7_A*
Length = 455
Score = 29.4 bits (67), Expect = 3.5
Identities = 9/37 (24%), Positives = 18/37 (48%)
Query: 317 VEVKMDTTCTNLEFLEKGVKVTLNNDQHIEANHVVSA 353
+ ++ T + KG +V L + +EA+ V+ A
Sbjct: 223 LTIRTGVRVTAVVPEAKGARVELEGGEVLEADRVLVA 259
>3cdh_A Transcriptional regulator, MARR family; helix-turn-hleix, structura
genomics, PSI-2, protein structure initiative; 2.69A
{Silicibacter pomeroyi dss-3}
Length = 155
Score = 28.5 bits (64), Expect = 3.6
Identities = 8/49 (16%), Positives = 21/49 (42%), Gaps = 3/49 (6%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERC-EGFSGADLEQL 197
+ +D++ + + LT G+ + E + A + R + D ++
Sbjct: 91 ADAKDKRRVRVRLTDDGRA--LAESLVASARAHETRLLSALADTDAARI 137
>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET:
AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1
Length = 222
Score = 28.7 bits (65), Expect = 3.7
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFIS 45
V++ G P GK + + + + IS
Sbjct: 8 VMISGAPASGKGTQCELIKTKYQLAHIS 35
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 29.4 bits (65), Expect = 3.9
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFIS 45
VL+ G PGCGKT + N +
Sbjct: 164 VLVDGVPGCGKTKEILSRVNFEEDLILV 191
>2nnn_A Probable transcriptional regulator; structural genomics, PSI-2,
protein structure initiative, M center for structural
genomics, MCSG; 2.40A {Pseudomonas aeruginosa}
Length = 140
Score = 28.1 bits (63), Expect = 3.9
Identities = 7/50 (14%), Positives = 19/50 (38%), Gaps = 1/50 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
+ D + +L++L+ G+ + + + + S + E L
Sbjct: 86 ADPDDGRRLLVSLSPAGRA-ELEAGLAAAREINRQALAPLSLQEQETLRG 134
>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2
function project, S2F, unknown function; HET: ADP;
1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB:
1fl9_A
Length = 158
Score = 28.4 bits (64), Expect = 4.0
Identities = 9/25 (36%), Positives = 11/25 (44%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGIN 42
V L G G GKT L + + G
Sbjct: 36 VYLNGDLGAGKTTLTRGMLQGIGHQ 60
>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation,
nucleotide metab transferase; HET: C5P; 1.50A {Thermus
thermophilus} PDB: 3akc_A* 3akd_A*
Length = 208
Score = 28.6 bits (65), Expect = 4.0
Identities = 8/23 (34%), Positives = 14/23 (60%)
Query: 22 GPPGCGKTLLAKAVANEAGINFI 44
GP GK+ +A+ VA G+ ++
Sbjct: 9 GPSASGKSSVARRVAAALGVPYL 31
>2fa5_A Transcriptional regulator MARR/EMRR family; multiple antibiotics
resistance repressor, XCC structural genomics, X-RAY
diffraction; 1.80A {Xanthomonas campestris}
Length = 162
Score = 28.1 bits (63), Expect = 4.0
Identities = 12/50 (24%), Positives = 22/50 (44%), Gaps = 3/50 (6%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADER-CEGFSGADLEQLV 198
+ DR+ +LAL+ G+ + E V ++R FS + + L
Sbjct: 97 THGDDRRRSMLALSPAGRQ--VYETVAPLVNEMEQRLMSVFSAEEQQTLE 144
>2a61_A Transcriptional regulator TM0710; APC4350, MCSG, midwest center for
structural genomics, PSI, protein structure initiative,
MARR; 1.80A {Thermotoga maritima} SCOP: a.4.5.28
Length = 145
Score = 28.1 bits (63), Expect = 4.1
Identities = 6/49 (12%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLV 198
P+ DR+ L +T++G++ ++ + ++ + ++ +++
Sbjct: 81 PDPADRRAYFLVITRKGEE-VIEKVIERRENFIEKITSDLGKEKSSKIL 128
>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside
modification, isopentenyl-tRNA transferase,
transferase-RNA complex; 2.50A {Escherichia coli k-12}
PDB: 2zxu_A* 2zm5_A
Length = 316
Score = 29.0 bits (66), Expect = 4.4
Identities = 13/34 (38%), Positives = 16/34 (47%)
Query: 13 STPSGVLLCGPPGCGKTLLAKAVANEAGINFISV 46
S P + L GP GKT LA + + ISV
Sbjct: 8 SLPKAIFLMGPTASGKTALAIELRKILPVELISV 41
>2qfd_A Probable ATP-dependent RNA helicase DDX58; zinc finger, alternative
splicing, antiviral defense, ATP- binding, hydrolase,
immune response; 2.70A {Homo sapiens} PDB: 2qfb_A
Length = 145
Score = 28.1 bits (62), Expect = 4.5
Identities = 12/82 (14%), Positives = 24/82 (29%), Gaps = 5/82 (6%)
Query: 3 PVKYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESERA 62
P PK F + C C I I ++ + + +
Sbjct: 66 PHPKPKQFSSFEKRAKIFCARQNCSHDWGIHVKYKTFEIPVIKIE-----SFVVEDIATG 120
Query: 63 VRQCFQRARNSQPCVIFFDEID 84
V+ + + ++ I FD +
Sbjct: 121 VQTLYSKWKDFHFEKIPFDPAE 142
>1jr3_A DNA polymerase III subunit gamma; processivity, processivity
clamp, clamp loader, AAA+ ATPase, transferase; HET:
DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20
PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*
Length = 373
Score = 28.7 bits (65), Expect = 4.7
Identities = 13/28 (46%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 19 LLCGPPGCGKT----LLAKAVANEAGIN 42
L G G GKT LLAK + E GI
Sbjct: 42 LFSGTRGVGKTSIARLLAKGLNCETGIT 69
>3k0l_A Repressor protein; helix-turn-helix, structural genomics, PSI-2,
protein structure initiative, midwest center for
structural genomics, MCSG; 2.35A {Acinetobacter SP}
Length = 162
Score = 28.1 bits (63), Expect = 4.9
Identities = 7/50 (14%), Positives = 17/50 (34%), Gaps = 1/50 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
P+ + IL+ +T G D + + + + +G +
Sbjct: 94 PDPTHGRRILVTVTPSGLD-KLNQCNQVVQQLEAQMLQGVDINLAFLIRN 142
>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 = 28.5 bits (63), Expect = 5.0
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 18 VLLCGPPGCGKTLLAKAVA 36
L P G GK++LA +A
Sbjct: 33 GALVSPGGAGKSMLALQLA 51
>3f2s_A CK, chetk-alpha, choline kinase alpha; non-protein kinase,
structural genomics consortium, SGC, hemicholinium-3,
alternative splicing, cytoplasm; HET: ADP HC6; 1.70A
{Homo sapiens} PDB: 3f2r_A* 3g15_A* 2i7q_A 2cko_A
2ckp_A* 2ckq_A*
Length = 401
Score = 28.8 bits (63), Expect = 5.1
Identities = 18/113 (15%), Positives = 33/113 (29%), Gaps = 20/113 (17%)
Query: 206 ILEIVNSVENDDQAGIDDTEQVTIGFRHFDIAL---------KRIKPSVSKADCKNYESL 256
+L + + D E + +R FDI K +A+ + Y +
Sbjct: 257 LLLEGRENSEKQKLMLIDFEYSSYNYRGFDIGNHFCEWMYDYSYEKYPFFRANIRKYPTK 316
Query: 257 KQR------YTTPGAIKEMMSKRPDLSG-----YEESELYRRSRIEKWSVWSV 298
KQ+ Y + S E + + W +WS+
Sbjct: 317 KQQLHFISSYLPAFQNDFENLSTEEKSIIKEEMLLEVNRFALASHFLWGLWSI 369
>2fbk_A Transcriptional regulator, MARR family; winged-helix-turn-helix;
2.30A {Deinococcus radiodurans} SCOP: a.4.5.28
Length = 181
Score = 28.2 bits (63), Expect = 5.3
Identities = 11/66 (16%), Positives = 22/66 (33%), Gaps = 13/66 (19%)
Query: 150 PNEQDRKEILLALTKQGK---DPMMGEDVDFDKIAADERCEGFSGADLEQL------VKE 200
+E+DR+ + LT QG+ ++ + S + L +
Sbjct: 120 EDERDRRSASIRLTPQGRALVTHLLPAHLATT----QRVLAPLSAQEQRTLEELAGRMLA 175
Query: 201 AREQAI 206
EQ +
Sbjct: 176 GLEQGV 181
>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 = 28.5 bits (63), Expect = 5.4
Identities = 6/16 (37%), Positives = 7/16 (43%)
Query: 14 TPSGVLLCGPPGCGKT 29
V+ G G GKT
Sbjct: 13 ASMIVVFVGTAGSGKT 28
>2gxg_A 146AA long hypothetical transcriptional regulator; winged helix;
1.45A {Sulfolobus tokodaii} PDB: 2eb7_A 2yr2_A 3gez_A
3gf2_A* 3gfi_A 3gfm_A 3gfj_A 3gfl_A
Length = 146
Score = 27.7 bits (62), Expect = 5.7
Identities = 10/48 (20%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQL 197
+ +DR++IL+ +T++G + + ++ K A+E S ++ +
Sbjct: 84 RDREDRRKILIEITEKGLE-TFNKGIEIYKKLANEVTGDLSEDEVILV 130
>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus
thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*
Length = 311
Score = 28.3 bits (64), Expect = 5.8
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 22 GPPGCGKTLLAKAVAN 37
GP G GKT LAK +A
Sbjct: 54 GPTGVGKTELAKTLAA 69
>2fxa_A Protease production regulatory protein HPR; protease porduction,
regulation, STR genomics, PSI, protein structure
initiative; HET: PGE P6G 1PE; 2.40A {Bacillus subtilis}
SCOP: a.4.5.28
Length = 207
Score = 28.0 bits (62), Expect = 6.0
Identities = 16/99 (16%), Positives = 37/99 (37%), Gaps = 5/99 (5%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVKEAREQA-ILE 208
D++ + LT++G + + ++ + +G L L + E A ++
Sbjct: 96 KRLNDKRNTYVQLTEEGTE-VFWSLLEEFDPTRNAVFKGSQ--PLYHLFGKFPEVAEMMC 152
Query: 209 IVNSVENDDQAGIDDTEQVTIGFRHFDIALKRIKPSVSK 247
++ + DD I +T I F+ ++K
Sbjct: 153 MIRHIYGDDFMEIFETSLTNID-NDFESVNGKLKKKAKD 190
>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 = 6.1
Identities = 10/32 (31%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 8 KLFGKSTP--SGVLLCGPPGCGKTLLAKAVAN 37
K F K TP + ++ CGP GK+ + +
Sbjct: 49 KSFLKGTPKKNCLVFCGPANTGKSYFGMSFIH 80
>3e6m_A MARR family transcriptional regulator; APC88769, silicibacter
pomeroyi DSS, structural genomics, PSI-2, protein
structure initiative; 2.20A {Silicibacter pomeroyi}
Length = 161
Score = 27.7 bits (62), Expect = 6.2
Identities = 6/51 (11%), Positives = 19/51 (37%), Gaps = 3/51 (5%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADER-CEGFSGADLEQLVK 199
++ D+++ + LT++GK ++ L+ ++
Sbjct: 101 ISDADQRKRTVVLTRKGKK--KLAEISPLINDFHAELVGNVDPDKLQTCIE 149
>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein
biosynthesis, nucleotide-binding, phosphorylation, RNA-
binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces
cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A
Length = 986
Score = 28.5 bits (63), Expect = 6.7
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 20 LCGPPGCGKTLLAKAVANEAGINFISVKG 48
+CGP GCGK+ L +A+AN F + +
Sbjct: 466 ICGPNGCGKSTLMRAIANGQVDGFPTQEE 494
>3fm5_A Transcriptional regulator; MCSG, PF04017, PSI, MARR, structu
genomics, protein structure initiative, midwest center
for structural genomics; HET: GOL; 2.00A {Rhodococcus
jostii}
Length = 150
Score = 27.3 bits (61), Expect = 7.1
Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 1/50 (2%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERCEGFSGADLEQLVK 199
+ DR+ L+A T++G+ + + A EG + Q+
Sbjct: 88 LDPSDRRNKLIAATEEGR-RLRDDAKARVDAAHGRYFEGIPDTVVNQMRD 136
>2o2g_A Dienelactone hydrolase; YP_324580.1, structural genomics, JO center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE; 1.92A {Anabaena variabilis}
Length = 223
Score = 27.9 bits (62), Expect = 7.3
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 112 GFEGRGGVFLMAATNRPDIIDPAVMRPGRFD 142
G GG L+AA RP+ + V R GR D
Sbjct: 120 GASTGGGAALVAAAERPETVQAVVSRGGRPD 150
>2fbi_A Probable transcriptional regulator; MARR, APC5816, structural
genomic protein structure initiative; 2.10A {Pseudomonas
aeruginosa} SCOP: a.4.5.28
Length = 142
Score = 27.3 bits (61), Expect = 7.5
Identities = 11/51 (21%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERC-EGFSGADLEQLVK 199
+D++ + + LT++G+ + D +R E F L QL++
Sbjct: 84 KAPKDQRRVYVNLTEKGQQ--CFVSMSGDMEKNYQRIQERFGEEKLAQLLE 132
>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 = 28.3 bits (64), Expect = 7.7
Identities = 10/16 (62%), Positives = 11/16 (68%)
Query: 22 GPPGCGKTLLAKAVAN 37
GP G GKT LAK +A
Sbjct: 595 GPTGVGKTELAKTLAA 610
>3ce9_A Glycerol dehydrogenase; NP_348253.1, 3-dehydroquinate syntha
structural genomics, joint center for structural
genomics; HET: MSE; 2.37A {Clostridium acetobutylicum
atcc 824}
Length = 354
Score = 27.9 bits (62), Expect = 8.3
Identities = 9/23 (39%), Positives = 12/23 (52%), Gaps = 1/23 (4%)
Query: 25 GCGKTL-LAKAVANEAGINFISV 46
G GK + K +A + FISV
Sbjct: 96 GGGKAIDAVKYMAFLRKLPFISV 118
>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation,
ADP, nucleotide binding, CARD, apoptosis; HET: ADP;
2.21A {Homo sapiens}
Length = 591
Score = 28.3 bits (63), Expect = 8.5
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 11 GKSTPSGVLLCGPPGCGKTLLAKAVANEAGI 41
K P V + G GCGK++LA + +
Sbjct: 143 LKGEPGWVTIHGMAGCGKSVLAAEAVRDHSL 173
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 28.0 bits (63), Expect = 8.6
Identities = 10/41 (24%), Positives = 17/41 (41%), Gaps = 10/41 (24%)
Query: 9 LFG---KSTPSG-------VLLCGPPGCGKTLLAKAVANEA 39
LFG K +L+ G PG K+ + + ++ A
Sbjct: 311 LFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFISRVA 351
>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 = 27.3 bits (60), Expect = 9.0
Identities = 7/30 (23%), Positives = 14/30 (46%)
Query: 18 VLLCGPPGCGKTLLAKAVANEAGINFISVK 47
V++ G PG G T ++ + ++ K
Sbjct: 6 VVVTGVPGVGSTTSSQLAMDNLRKEGVNYK 35
>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase
domains, sensor 1, sensor 2, transferase; HET: DNA;
2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*
Length = 250
Score = 27.6 bits (62), Expect = 9.7
Identities = 13/28 (46%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 19 LLCGPPGCGKT----LLAKAVANEAGIN 42
L G G GKT LLAK + E GI
Sbjct: 49 LFSGTRGVGKTSIARLLAKGLNCETGIT 76
>3zvl_A Bifunctional polynucleotide phosphatase/kinase;
hydrolase-transferase complex, base excision repair,
BER, non-homologous END-joining, NHEJ; 1.65A {Mus
musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B*
3u7h_B* 3u7g_A*
Length = 416
Score = 27.9 bits (61), Expect = 9.8
Identities = 17/78 (21%), Positives = 25/78 (32%), Gaps = 7/78 (8%)
Query: 1 MFPVKYPKLFGKSTPSGVLLCGPPGCGKTLLAKAVANEAGINFISVKGPELLNMYLGESE 60
+ P V+ G PG GK+ + AG ++ LG +
Sbjct: 244 PLYLPESSSLLSPNPEVVVAVGFPGAGKSTFIQEHLVSAGYVHVNRD-------TLGSWQ 296
Query: 61 RAVRQCFQRARNSQPCVI 78
R V C R + VI
Sbjct: 297 RCVSSCQAALRQGKRVVI 314
>1z91_A Organic hydroperoxide resistance transcriptional; OHRR, MARR
family, bacterial transcription factor, DNA bindi
protein; 2.50A {Bacillus subtilis} SCOP: a.4.5.28 PDB:
1z9c_A*
Length = 147
Score = 26.9 bits (60), Expect = 10.0
Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 5/51 (9%)
Query: 150 PNEQDRKEILLALTKQGKDPMMGEDVDFDKIAADERC-EGFSGADLEQLVK 199
+E+D + +L++LT+ G + E I SG DL+QL
Sbjct: 88 RSEEDERSVLISLTEDGAL--LKEKA--VDIPGTILGLSKQSGEDLKQLKS 134
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.136 0.408
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: 8,440,525
Number of extensions: 523358
Number of successful extensions: 1637
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1510
Number of HSP's successfully gapped: 249
Length of query: 541
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 443
Effective length of database: 3,965,535
Effective search space: 1756732005
Effective search space used: 1756732005
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (26.8 bits)