RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4538
(343 letters)
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 345 bits (887), Expect = e-119
Identities = 112/224 (50%), Positives = 155/224 (69%), Gaps = 4/224 (1%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+LLFGPPG GKTL+ + VA +C ATF ISA++LTSK+ G+GEK+VRALFAVA QPSI
Sbjct: 57 LLLFGPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSI 116
Query: 61 IFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTL-DDDLVLVIGATNRPQELDEAA 119
IFIDE+DSLL +RS E+E SRRLKTEFL+ DG D D ++V+ ATNRPQELDEAA
Sbjct: 117 IFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAA 176
Query: 120 RRRLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCREA 179
RR KR+Y+ LPDEQ R ++ +LL+ + L + + + ++T +SG+D+ +L ++A
Sbjct: 177 LRRFTKRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDA 236
Query: 180 SLGPVRSI---DLSRIDALDVRPISIDDFRDALKTVRPSVCQAD 220
+L P+R + + +D +R I+ DF +LK +R SV
Sbjct: 237 ALEPIRELNVEQVKCLDISAMRAITEQDFHSSLKRIRRSVAPQS 280
Score = 143 bits (364), Expect = 6e-41
Identities = 53/81 (65%), Positives = 62/81 (76%), Gaps = 1/81 (1%)
Query: 223 HQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTL-DDDLVLVIGATNRPQE 281
QPSIIFIDE+DSLL +RS E+E SRRLKTEFL+ DG D D ++V+ ATNRPQE
Sbjct: 112 MQPSIIFIDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQE 171
Query: 282 LDEAARRRLVKRLYIPLPDEQ 302
LDEAA RR KR+Y+ LPDEQ
Sbjct: 172 LDEAALRRFTKRVYVSLPDEQ 192
Score = 40.4 bits (95), Expect = 5e-04
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 8/41 (19%)
Query: 311 MDKID--------QENETSRRLKTEFLISLDGASTLDDDLH 343
+D++D E+E SRRLKTEFL+ DG D
Sbjct: 119 IDEVDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDR 159
>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 = 345 bits (886), Expect = e-118
Identities = 145/223 (65%), Positives = 176/223 (78%), Gaps = 3/223 (1%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
ILLFGPPGTGKTLIGKC+A+Q ATFF ISAS+LTSKW GEGEKMVRALFAVA QP++
Sbjct: 120 ILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAV 179
Query: 61 IFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAAR 120
IFIDEIDSLL QR D E+E+SRR+KTEFL+ LDGA+T +D +LV+GATNRPQE+DEAAR
Sbjct: 180 IFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAAR 239
Query: 121 RRLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCREAS 180
RRLVKRLYIPLP+ AR +IV L+ L+ ++IE++ + + FSGADM LCREAS
Sbjct: 240 RRLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREAS 299
Query: 181 LGPVRSI---DLSRIDALDVRPISIDDFRDALKTVRPSVCQAD 220
LGP+RS+ D++ I VRPI+ DF +A +TVRPSV D
Sbjct: 300 LGPIRSLQTADIATITPDQVRPIAYIDFENAFRTVRPSVSPKD 342
Score = 147 bits (374), Expect = 1e-41
Identities = 58/80 (72%), Positives = 70/80 (87%)
Query: 223 HQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQEL 282
QP++IFIDEIDSLL QR D E+E+SRR+KTEFL+ LDGA+T +D +LV+GATNRPQE+
Sbjct: 175 QQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEI 234
Query: 283 DEAARRRLVKRLYIPLPDEQ 302
DEAARRRLVKRLYIPLP+
Sbjct: 235 DEAARRRLVKRLYIPLPEAS 254
Score = 40.9 bits (96), Expect = 3e-04
Identities = 17/27 (62%), Positives = 23/27 (85%)
Query: 315 DQENETSRRLKTEFLISLDGASTLDDD 341
D E+E+SRR+KTEFL+ LDGA+T +D
Sbjct: 194 DGEHESSRRIKTEFLVQLDGATTSSED 220
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 346 bits (888), Expect = e-118
Identities = 116/223 (52%), Positives = 162/223 (72%), Gaps = 3/223 (1%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+LLFGPPG GKT++ K VAA+ ATFF ISA++LTSK+ GEGEK+VRALFAVA QPSI
Sbjct: 151 LLLFGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSI 210
Query: 61 IFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAAR 120
IFID++DSLLC+R + E++ SRRLKTEFLI DG + DD VLV+GATNRPQELDEA
Sbjct: 211 IFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVL 270
Query: 121 RRLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCREAS 180
RR +KR+Y+ LP+E+ R ++ LL + LT ++ ++ RMT +SG+D+ +L ++A+
Sbjct: 271 RRFIKRVYVSLPNEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAA 330
Query: 181 LGPVRSI---DLSRIDALDVRPISIDDFRDALKTVRPSVCQAD 220
LGP+R + + + A ++R I + DF ++LK ++ SV
Sbjct: 331 LGPIRELKPEQVKNMSASEMRNIRLSDFTESLKKIKRSVSPQT 373
Score = 148 bits (375), Expect = 1e-41
Identities = 52/80 (65%), Positives = 65/80 (81%)
Query: 223 HQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQEL 282
QPSIIFID++DSLLC+R + E++ SRRLKTEFLI DG + DD VLV+GATNRPQEL
Sbjct: 206 LQPSIIFIDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQEL 265
Query: 283 DEAARRRLVKRLYIPLPDEQ 302
DEA RR +KR+Y+ LP+E+
Sbjct: 266 DEAVLRRFIKRVYVSLPNEE 285
Score = 41.4 bits (97), Expect = 3e-04
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 8/39 (20%)
Query: 311 MDKID--------QENETSRRLKTEFLISLDGASTLDDD 341
+D++D E++ SRRLKTEFLI DG + DD
Sbjct: 213 IDQVDSLLCERREGEHDASRRLKTEFLIEFDGVQSAGDD 251
>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 = 323 bits (830), Expect = e-110
Identities = 100/254 (39%), Positives = 144/254 (56%), Gaps = 35/254 (13%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
ILL+GPPGTGK+ + K VA + +TFF +S+S L SKW GE EK+V+ LFA+A ++PSI
Sbjct: 54 ILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSI 113
Query: 61 IFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAAR 120
IFID++D+L R + E+E SRR+KTE L+ ++G D VLV+GATN P +LD A R
Sbjct: 114 IFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGN-DSQGVLVLGATNIPWQLDSAIR 172
Query: 121 RRLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCREAS 180
RR +R+YIPLPD AR + + + LT +D +G MT +SG+D+A + ++A
Sbjct: 173 RRFERRIYIPLPDLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDAL 232
Query: 181 LGPVRSI----------------------------------DLSRIDALDVRPISIDDFR 206
+ P+R I D L ++I DF
Sbjct: 233 MQPIRKIQSATHFKDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPDLTIKDFL 292
Query: 207 DALKTVRPSVCQAD 220
A+K+ RP+V + D
Sbjct: 293 KAIKSTRPTVNEDD 306
Score = 142 bits (360), Expect = 5e-40
Identities = 42/80 (52%), Positives = 57/80 (71%), Gaps = 1/80 (1%)
Query: 223 HQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQEL 282
++PSIIFID++D+L R + E+E SRR+KTE L+ ++G D VLV+GATN P +L
Sbjct: 109 NKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGN-DSQGVLVLGATNIPWQL 167
Query: 283 DEAARRRLVKRLYIPLPDEQ 302
D A RRR +R+YIPLPD
Sbjct: 168 DSAIRRRFERRIYIPLPDLA 187
Score = 38.1 bits (89), Expect = 0.002
Identities = 12/39 (30%), Positives = 20/39 (51%), Gaps = 8/39 (20%)
Query: 311 MDKIDQ--------ENETSRRLKTEFLISLDGASTLDDD 341
+D++D E+E SRR+KTE L+ ++G
Sbjct: 116 IDQVDALTGTRGEGESEASRRIKTELLVQMNGVGNDSQG 154
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 319 bits (819), Expect = e-108
Identities = 107/261 (40%), Positives = 144/261 (55%), Gaps = 42/261 (16%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCK-ATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPS 59
ILLFGPPGTGK+ + K VA + +TFF IS+S L SKW GE EK+V+ LF +A ++PS
Sbjct: 48 ILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPS 107
Query: 60 IIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAA 119
IIFIDEIDSL RS+ E+E +RR+KTEFL+ + G D+D +LV+GATN P LD A
Sbjct: 108 IIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV-DNDGILVLGATNIPWVLDSAI 166
Query: 120 RRRLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCREA 179
RRR KR+YIPLP+ AR + L NSLT D E+GR T +SGAD++ + R+A
Sbjct: 167 RRRFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDA 226
Query: 180 SLGPVRSIDLSRI----------------------------------------DALDVRP 199
+ PVR + + D L
Sbjct: 227 LMQPVRKVQSATHFKKVRGPSRADPNHLVDDLLTPCSPGDPGAIEMTWMDVPGDKLLEPV 286
Query: 200 ISIDDFRDALKTVRPSVCQAD 220
+S+ D +L +P+V + D
Sbjct: 287 VSMSDMLRSLSNTKPTVNEHD 307
Score = 144 bits (365), Expect = 9e-41
Identities = 46/80 (57%), Positives = 59/80 (73%), Gaps = 1/80 (1%)
Query: 223 HQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQEL 282
++PSIIFIDEIDSL RS+ E+E +RR+KTEFL+ + G D+D +LV+GATN P L
Sbjct: 104 NKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV-DNDGILVLGATNIPWVL 162
Query: 283 DEAARRRLVKRLYIPLPDEQ 302
D A RRR KR+YIPLP+
Sbjct: 163 DSAIRRRFEKRIYIPLPEPH 182
Score = 40.1 bits (94), Expect = 7e-04
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 315 DQENETSRRLKTEFLISLDGASTLDD 340
+ E+E +RR+KTEFL+ + G +D
Sbjct: 123 ENESEAARRIKTEFLVQMQGVGVDND 148
>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 = 309 bits (793), Expect = e-104
Identities = 100/254 (39%), Positives = 145/254 (57%), Gaps = 35/254 (13%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
ILL+GPPGTGK+ + K VA + +TFF +S+S L SKW GE EK+V+ LFA+A ++PSI
Sbjct: 87 ILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSI 146
Query: 61 IFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAAR 120
IFID++D+L R + E+E SRR+KTE L+ ++G D VLV+GATN P +LD A R
Sbjct: 147 IFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGN-DSQGVLVLGATNIPWQLDSAIR 205
Query: 121 RRLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCREAS 180
RR +R+YIPLPD AR + + + + LT +D +G MT +SG+D+A + ++A
Sbjct: 206 RRFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDAL 265
Query: 181 LGPVRSI----------------------------------DLSRIDALDVRPISIDDFR 206
+ P+R I D L ++I DF
Sbjct: 266 MQPIRKIQSATHFKDVSTEDDETRKLTPSSPGDDGAIEMSWTDIEADELKEPDLTIKDFL 325
Query: 207 DALKTVRPSVCQAD 220
A+K+ RP+V + D
Sbjct: 326 KAIKSTRPTVNEDD 339
Score = 138 bits (348), Expect = 4e-38
Identities = 42/80 (52%), Positives = 57/80 (71%), Gaps = 1/80 (1%)
Query: 223 HQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQEL 282
++PSIIFID++D+L R + E+E SRR+KTE L+ ++G D VLV+GATN P +L
Sbjct: 142 NKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGVGN-DSQGVLVLGATNIPWQL 200
Query: 283 DEAARRRLVKRLYIPLPDEQ 302
D A RRR +R+YIPLPD
Sbjct: 201 DSAIRRRFERRIYIPLPDLA 220
Score = 37.1 bits (86), Expect = 0.005
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 315 DQENETSRRLKTEFLISLDGASTLDDD 341
+ E+E SRR+KTE L+ ++G
Sbjct: 161 EGESEASRRIKTELLVQMNGVGNDSQG 187
>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 = 303 bits (777), Expect = e-101
Identities = 107/261 (40%), Positives = 147/261 (56%), Gaps = 42/261 (16%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCK-ATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPS 59
ILLFGPPGTGK+ + K VA + +TFF IS+S L SKW GE EK+V+ LF +A ++PS
Sbjct: 170 ILLFGPPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPS 229
Query: 60 IIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAA 119
IIFIDEIDSL RS+ E+E +RR+KTEFL+ + G D+D +LV+GATN P LD A
Sbjct: 230 IIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV-DNDGILVLGATNIPWVLDSAI 288
Query: 120 RRRLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCREA 179
RRR KR+YIPLP+ AR + L + NSLT D +E+GR T +SGAD++ + R+A
Sbjct: 289 RRRFEKRIYIPLPEAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDA 348
Query: 180 SLGPVRSIDLSR----------------------------------------IDALDVRP 199
+ PVR + + D L
Sbjct: 349 LMQPVRKVQSATHFKKVRGPSRADPNCIVNDLLTPCSPGDPGAIEMTWMDVPGDKLLEPV 408
Query: 200 ISIDDFRDALKTVRPSVCQAD 220
+S+ D +L + +P+V + D
Sbjct: 409 VSMWDMLRSLSSTKPTVNEQD 429
Score = 139 bits (352), Expect = 6e-38
Identities = 46/80 (57%), Positives = 59/80 (73%), Gaps = 1/80 (1%)
Query: 223 HQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQEL 282
++PSIIFIDEIDSL RS+ E+E +RR+KTEFL+ + G D+D +LV+GATN P L
Sbjct: 226 NKPSIIFIDEIDSLCGSRSENESEAARRIKTEFLVQMQGVGV-DNDGILVLGATNIPWVL 284
Query: 283 DEAARRRLVKRLYIPLPDEQ 302
D A RRR KR+YIPLP+
Sbjct: 285 DSAIRRRFEKRIYIPLPEAH 304
Score = 38.8 bits (90), Expect = 0.002
Identities = 11/27 (40%), Positives = 18/27 (66%)
Query: 315 DQENETSRRLKTEFLISLDGASTLDDD 341
+ E+E +RR+KTEFL+ + G +D
Sbjct: 245 ENESEAARRIKTEFLVQMQGVGVDNDG 271
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 212 bits (541), Expect = 2e-67
Identities = 77/228 (33%), Positives = 117/228 (51%), Gaps = 10/228 (4%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+LL GPPG GKTL+ K VA + F + L + + GE E+ VR +F A P +
Sbjct: 47 VLLAGPPGCGKTLLAKAVANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCV 106
Query: 61 IFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAAR 120
IF DE+D+L +RSD+E S R+ + L +DG V ++ ATNRP +D A
Sbjct: 107 IFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQ--VFIMAATNRPDIIDPAIL 164
Query: 121 R--RLVKRLYIPLPDEQARCEIVTKLLRNITNS-LTVD-DIEEVGR--MTTDFSGADMAS 174
R RL K L++ LP R I+ + +N T L D ++E + ++GAD+++
Sbjct: 165 RPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSA 224
Query: 175 LCREASLGPVR-SIDLSRIDALDVRP-ISIDDFRDALKTVRPSVCQAD 220
L REAS+ +R + + +S F +A K VR S+ + D
Sbjct: 225 LVREASICALRQEMARQKSGNEKGELKVSHKHFEEAFKKVRSSISKKD 272
Score = 85.3 bits (212), Expect = 3e-19
Identities = 31/80 (38%), Positives = 44/80 (55%), Gaps = 4/80 (5%)
Query: 225 PSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDE 284
P +IF DE+D+L +RSD+E S R+ + L +DG V ++ ATNRP +D
Sbjct: 104 PCVIFFDEVDALCPRRSDRETGASVRVVNQLLTEMDGLEARQQ--VFIMAATNRPDIIDP 161
Query: 285 AARR--RLVKRLYIPLPDEQ 302
A R RL K L++ LP
Sbjct: 162 AILRPGRLDKTLFVGLPPPA 181
>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 = 214 bits (547), Expect = 8e-66
Identities = 87/225 (38%), Positives = 125/225 (55%), Gaps = 13/225 (5%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
ILL+GPPGTGKTLI + VA + A FF I+ + SK GE E +R F A + P+I
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAI 300
Query: 61 IFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAAR 120
IFIDE+D++ +R E RR+ ++ L +DG V+V+ ATNRP +D A R
Sbjct: 301 IFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH--VIVMAATNRPNSIDPALR 358
Query: 121 R--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCRE 178
R R + + I +PD R EI+ +N+ + V D+E+V T GAD+A+LC E
Sbjct: 359 RFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDV-DLEQVANETHGHVGADLAALCSE 417
Query: 179 ASLGPVR----SIDLSR----IDALDVRPISIDDFRDALKTVRPS 215
A+L +R IDL + ++ +++DDFR AL PS
Sbjct: 418 AALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPS 462
Score = 81.4 bits (201), Expect = 3e-17
Identities = 30/82 (36%), Positives = 46/82 (56%), Gaps = 4/82 (4%)
Query: 223 HQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQEL 282
+ P+IIFIDE+D++ +R E RR+ ++ L +DG V+V+ ATNRP +
Sbjct: 296 NAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAH--VIVMAATNRPNSI 353
Query: 283 DEAARR--RLVKRLYIPLPDEQ 302
D A RR R + + I +PD
Sbjct: 354 DPALRRFGRFDREVDIGIPDAT 375
>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 = 207 bits (528), Expect = 4e-65
Identities = 83/241 (34%), Positives = 121/241 (50%), Gaps = 24/241 (9%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+L +GPPG GKTL+ K +A +C+A F I L + W+GE E VR +F A P +
Sbjct: 52 VLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCV 111
Query: 61 IFIDEIDSLLCQRSDQENETSR---RLKTEFLISLDGASTLDDDLVLVIGATNRPQELDE 117
+F DE+DS+ R + R+ + L +DG ST + V +IGATNRP +D
Sbjct: 112 LFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKN--VFIIGATNRPDIIDP 169
Query: 118 AARR--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASL 175
A R RL + +YIPLPDE++R I+ LR + V D+E + +MT FSGAD+ +
Sbjct: 170 AILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV-DLEFLAKMTNGFSGADLTEI 228
Query: 176 CREASLGPVR----------------SIDLSRIDALDVRPISIDDFRDALKTVRPSVCQA 219
C+ A +R + + V I D F +A++ R SV
Sbjct: 229 CQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDN 288
Query: 220 D 220
D
Sbjct: 289 D 289
Score = 82.3 bits (204), Expect = 5e-18
Identities = 33/83 (39%), Positives = 47/83 (56%), Gaps = 7/83 (8%)
Query: 225 PSIIFIDEIDSLLCQRSDQENETSR---RLKTEFLISLDGASTLDDDLVLVIGATNRPQE 281
P ++F DE+DS+ R + R+ + L +DG ST + V +IGATNRP
Sbjct: 109 PCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKN--VFIIGATNRPDI 166
Query: 282 LDEAARR--RLVKRLYIPLPDEQ 302
+D A R RL + +YIPLPDE+
Sbjct: 167 IDPAILRPGRLDQLIYIPLPDEK 189
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 200 bits (510), Expect = 1e-62
Identities = 83/221 (37%), Positives = 124/221 (56%), Gaps = 19/221 (8%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
ILL+GPPGTGKTL+ K VA + ATF + S L K+ GEG +V+ +F +A PSI
Sbjct: 54 ILLYGPPGTGKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSI 113
Query: 61 IFIDEIDSLLCQRSDQENETSR---RLKTEFLISLDGASTLDDDLVLVIGATNRPQELDE 117
IFIDEID++ +R+D R R + L +DG D V +IGATNRP LD
Sbjct: 114 IFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGD--VKIIGATNRPDILDP 171
Query: 118 AARR--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASL 175
A R R + + +P PDE+ R EI+ R + + V ++EE+ +MT GA++ ++
Sbjct: 172 AILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDV-NLEEIAKMTEGCVGAELKAI 230
Query: 176 CREASLGPVRSIDLSRIDALDVRP-ISIDDFRDALKTVRPS 215
C EA + +R ++R +++DDFR A++ +
Sbjct: 231 CTEAGMNAIR----------ELRDYVTMDDFRKAVEKIMEK 261
Score = 78.1 bits (193), Expect = 1e-16
Identities = 35/85 (41%), Positives = 46/85 (54%), Gaps = 7/85 (8%)
Query: 223 HQPSIIFIDEIDSLLCQRSDQENETSR---RLKTEFLISLDGASTLDDDLVLVIGATNRP 279
PSIIFIDEID++ +R+D R R + L +DG D V +IGATNRP
Sbjct: 109 KAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGFDARGD--VKIIGATNRP 166
Query: 280 QELDEAARR--RLVKRLYIPLPDEQ 302
LD A R R + + +P PDE+
Sbjct: 167 DILDPAILRPGRFDRIIEVPAPDEK 191
>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 = 208 bits (532), Expect = 2e-61
Identities = 83/241 (34%), Positives = 121/241 (50%), Gaps = 24/241 (9%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+L +GPPG GKTL+ K +A +C+A F I L + W+GE E VR +F A P +
Sbjct: 514 VLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCV 573
Query: 61 IFIDEIDSLLCQRSDQENETS---RRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDE 117
+F DE+DS+ R + R+ + L +DG ST + V +IGATNRP +D
Sbjct: 574 LFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKN--VFIIGATNRPDIIDP 631
Query: 118 AARR--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASL 175
A R RL + +YIPLPDE++R I+ LR + V D+E + +MT FSGAD+ +
Sbjct: 632 AILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDV-DLEFLAKMTNGFSGADLTEI 690
Query: 176 CREASLGPVR----------------SIDLSRIDALDVRPISIDDFRDALKTVRPSVCQA 219
C+ A +R + + V I D F +A++ R SV
Sbjct: 691 CQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDN 750
Query: 220 D 220
D
Sbjct: 751 D 751
Score = 202 bits (516), Expect = 4e-59
Identities = 90/241 (37%), Positives = 131/241 (54%), Gaps = 13/241 (5%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
ILL+GPPGTGKTLI + VA + A FF I+ + SK GE E +R F A + P+I
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAI 300
Query: 61 IFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAAR 120
IFIDE+D++ +R E RR+ ++ L +DG V+V+ ATNRP +D A R
Sbjct: 301 IFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLK--QRAHVIVMAATNRPNSIDPALR 358
Query: 121 R--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCRE 178
R R + + I +PD R EI+ +N+ + V D+E+V T GAD+A+LC E
Sbjct: 359 RFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDV-DLEQVANETHGHVGADLAALCSE 417
Query: 179 ASLGPVR------SIDLSRIDALDVRPISI--DDFRDALKTVRPSVCQADFVHQPSIIFI 230
A+L +R ++ IDA + +++ DDFR AL PS + V P + +
Sbjct: 418 AALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWE 477
Query: 231 D 231
D
Sbjct: 478 D 478
Score = 83.3 bits (206), Expect = 9e-18
Identities = 33/83 (39%), Positives = 47/83 (56%), Gaps = 7/83 (8%)
Query: 225 PSIIFIDEIDSLLCQRSDQENETS---RRLKTEFLISLDGASTLDDDLVLVIGATNRPQE 281
P ++F DE+DS+ R + R+ + L +DG ST + V +IGATNRP
Sbjct: 571 PCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKN--VFIIGATNRPDI 628
Query: 282 LDEAARR--RLVKRLYIPLPDEQ 302
+D A R RL + +YIPLPDE+
Sbjct: 629 IDPAILRPGRLDQLIYIPLPDEK 651
Score = 77.9 bits (192), Expect = 6e-16
Identities = 30/82 (36%), Positives = 46/82 (56%), Gaps = 4/82 (4%)
Query: 223 HQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQEL 282
+ P+IIFIDE+D++ +R E RR+ ++ L +DG V+V+ ATNRP +
Sbjct: 296 NAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLK--QRAHVIVMAATNRPNSI 353
Query: 283 DEAARR--RLVKRLYIPLPDEQ 302
D A RR R + + I +PD
Sbjct: 354 DPALRRFGRFDREVDIGIPDAT 375
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 153 bits (388), Expect = 2e-44
Identities = 38/235 (16%), Positives = 77/235 (32%), Gaps = 26/235 (11%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASV----H 56
+ ++G G GK+ + V + +SA L S GE K++R + A+
Sbjct: 39 LGIWGGKGQGKSFQCELVFRKMGINPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKG 98
Query: 57 QPSIIFIDEIDSLLCQRSDQENETSR-----RLKTEFL-----ISLDGASTLDD-DLVLV 105
+FI+++D+ + T + L G + V +
Sbjct: 99 NMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPI 158
Query: 106 IGATNRPQELDEAARR--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRM 163
I N L R R+ K + P ++ R + I + V E+V ++
Sbjct: 159 IVTGNDFSTLYAPLIRDGRMEKFYWAPTRED--RIGV----CTGIFRTDNV-PAEDVVKI 211
Query: 164 TTDFSGADMASLCREASLGPVRSI--DLSRIDALDVRPISIDDFRDALKTVRPSV 216
+F G + + + +S + ++ F +P +
Sbjct: 212 VDNFPGQSIDFFGALRARVYDDEVRKWVSGTGIEKIGDKLLNSFDGPPTFEQPKM 266
Score = 64.4 bits (157), Expect = 5e-12
Identities = 17/110 (15%), Positives = 34/110 (30%), Gaps = 21/110 (19%)
Query: 205 FRDALKTVRPSVCQADFVHQPSIIFIDEIDSLLCQRSDQENETSR-----RLKTEFL--- 256
+R+A + +R +FI+++D+ + T
Sbjct: 88 YREAAEIIRK--------GNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNP 139
Query: 257 --ISLDGASTLDD-DLVLVIGATNRPQELDEAARR--RLVKRLYIPLPDE 301
+ L G + V +I N L R R+ K + P ++
Sbjct: 140 TNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKFYWAPTRED 189
>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 = 135 bits (343), Expect = 3e-38
Identities = 72/223 (32%), Positives = 110/223 (49%), Gaps = 26/223 (11%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
LL GPPG GKTL+ K VA + + F ++ + G G VR+LF A P I
Sbjct: 42 ALLLGPPGCGKTLLAKAVATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCI 101
Query: 61 IFIDEIDSLLCQRS--------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRP 112
++IDEID++ +RS +E +T +L E +DG T D V+V+ +TNR
Sbjct: 102 VYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVE----MDGMGT--TDHVIVLASTNRA 155
Query: 113 QELDEAARR--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEV-GRMTTDFSG 169
LD A R RL + ++I LP Q R EI + L+++ + + + +T FSG
Sbjct: 156 DILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSG 215
Query: 170 ADMASLCREASLGPVRSIDLSRIDALDVRPISIDDFRDALKTV 212
AD+A++C EA+L R + +F A++ V
Sbjct: 216 ADIANICNEAALHAARE---------GHTSVHTLNFEYAVERV 249
Score = 54.2 bits (131), Expect = 1e-08
Identities = 31/88 (35%), Positives = 46/88 (52%), Gaps = 16/88 (18%)
Query: 223 HQPSIIFIDEIDSLLCQRS--------DQENETSRRLKTEFLISLDGASTLDDDLVLVIG 274
P I++IDEID++ +RS +E +T +L E +DG T D V+V+
Sbjct: 97 RAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVE----MDGMGT--TDHVIVLA 150
Query: 275 ATNRPQELDEAARR--RLVKRLYIPLPD 300
+TNR LD A R RL + ++I LP
Sbjct: 151 STNRADILDGALMRPGRLDRHVFIDLPT 178
>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 = 131 bits (331), Expect = 3e-36
Identities = 71/222 (31%), Positives = 116/222 (52%), Gaps = 25/222 (11%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+LL GPPGTGKTL+ K VA + FF + S+ + G G VR LF A PSI
Sbjct: 47 VLLVGPPGTGKTLLAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSI 106
Query: 61 IFIDEIDSLLCQRS--------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRP 112
IFIDEID++ R+ D+ +T +L L +DG + + V+V+ ATNRP
Sbjct: 107 IFIDEIDAIGKSRAAGGVVSGNDEREQTLNQL----LAEMDGFGSENAP-VIVLAATNRP 161
Query: 113 QELDEAARR--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGA 170
+ LD A R R +++ + PD R EI+ ++ + + V +++EV ++T +GA
Sbjct: 162 EILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDV-NLQEVAKLTAGLAGA 220
Query: 171 DMASLCREASLGPVRSIDLSRIDALDVRPISIDDFRDALKTV 212
D+A++ EA+L R+ + + + ++A++
Sbjct: 221 DLANIINEAALLAGRN---------NQKEVRQQHLKEAVERG 253
Score = 51.9 bits (125), Expect = 8e-08
Identities = 31/88 (35%), Positives = 47/88 (53%), Gaps = 15/88 (17%)
Query: 223 HQPSIIFIDEIDSLLCQRS--------DQENETSRRLKTEFLISLDGASTLDDDLVLVIG 274
PSIIFIDEID++ R+ D+ +T +L L +DG + + V+V+
Sbjct: 102 QAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQL----LAEMDGFGSENAP-VIVLA 156
Query: 275 ATNRPQELDEAARR--RLVKRLYIPLPD 300
ATNRP+ LD A R R +++ + PD
Sbjct: 157 ATNRPEILDPALMRPGRFDRQVLVDKPD 184
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 130 bits (329), Expect = 3e-36
Identities = 76/221 (34%), Positives = 115/221 (52%), Gaps = 25/221 (11%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+L+ GPPGTGKTL+ K +A + K FF IS S + G G VR +F A P I
Sbjct: 48 VLMVGPPGTGKTLLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCI 107
Query: 61 IFIDEIDSLLCQRS-------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQ 113
IFIDEID++ QR D+ +T ++ L+ +DG ++ ++VI ATNRP
Sbjct: 108 IFIDEIDAVGRQRGAGLGGGHDEREQTLNQM----LVEMDGFEG--NEGIIVIAATNRPD 161
Query: 114 ELDEAARR--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGAD 171
LD A R R +++ + LPD + R +I+ +R + + + D + R T FSGAD
Sbjct: 162 VLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDI-DAAIIARGTPGFSGAD 220
Query: 172 MASLCREASLGPVRSIDLSRIDALDVRPISIDDFRDALKTV 212
+A+L EA+L R + R +S+ +F A +
Sbjct: 221 LANLVNEAALFAARG---------NKRVVSMVEFEKAKDKI 252
Score = 52.3 bits (126), Expect = 5e-08
Identities = 31/87 (35%), Positives = 47/87 (54%), Gaps = 15/87 (17%)
Query: 223 HQPSIIFIDEIDSLLCQRS-------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGA 275
P IIFIDEID++ QR D+ +T ++ L+ +DG ++ ++VI A
Sbjct: 103 AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQM----LVEMDGFEG--NEGIIVIAA 156
Query: 276 TNRPQELDEAARR--RLVKRLYIPLPD 300
TNRP LD A R R +++ + LPD
Sbjct: 157 TNRPDVLDPALLRPGRFDRQVVVGLPD 183
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 130 bits (330), Expect = 4e-36
Identities = 71/218 (32%), Positives = 105/218 (48%), Gaps = 25/218 (11%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+LL GPPG GKT + + VA + + F S S + G G VR LF A H P I
Sbjct: 76 VLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCI 135
Query: 61 IFIDEIDSLLCQRS-------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQ 113
+FIDEID++ +R D+ +T +L L+ +DG D ++V+ ATNRP
Sbjct: 136 VFIDEIDAVGRKRGSGVGGGNDEREQTLNQL----LVEMDGFEK--DTAIVVMAATNRPD 189
Query: 114 ELDEAARR--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGAD 171
LD A R R +++ I PD + R +I+ R + V D+ + + T F GAD
Sbjct: 190 ILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV-DLALLAKRTPGFVGAD 248
Query: 172 MASLCREASLGPVRSIDLSRIDALDVRPISIDDFRDAL 209
+ +L EA+L R R I++ D +A
Sbjct: 249 LENLLNEAALLAARE---------GRRKITMKDLEEAA 277
Score = 52.0 bits (125), Expect = 8e-08
Identities = 31/87 (35%), Positives = 46/87 (52%), Gaps = 15/87 (17%)
Query: 223 HQPSIIFIDEIDSLLCQRS-------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGA 275
H P I+FIDEID++ +R D+ +T +L L+ +DG D ++V+ A
Sbjct: 131 HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQL----LVEMDGFEK--DTAIVVMAA 184
Query: 276 TNRPQELDEAARR--RLVKRLYIPLPD 300
TNRP LD A R R +++ I PD
Sbjct: 185 TNRPDILDPALLRPGRFDRQIAIDAPD 211
>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 = 129 bits (327), Expect = 6e-36
Identities = 71/218 (32%), Positives = 105/218 (48%), Gaps = 25/218 (11%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+LL GPPG GKT + + VA + + F S S + G G VR LF A H P I
Sbjct: 52 VLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCI 111
Query: 61 IFIDEIDSLLCQRS-------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQ 113
+FIDEID++ +R D+ +T +L L+ +DG D ++V+ ATNRP
Sbjct: 112 VFIDEIDAVGRKRGSGVGGGNDEREQTLNQL----LVEMDGFEK--DTAIVVMAATNRPD 165
Query: 114 ELDEAARR--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGAD 171
LD A R R +++ I PD + R +I+ R + V D+ + + T F GAD
Sbjct: 166 ILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV-DLALLAKRTPGFVGAD 224
Query: 172 MASLCREASLGPVRSIDLSRIDALDVRPISIDDFRDAL 209
+ +L EA+L R R I++ D +A
Sbjct: 225 LENLLNEAALLAARE---------GRRKITMKDLEEAA 253
Score = 51.6 bits (124), Expect = 8e-08
Identities = 31/87 (35%), Positives = 46/87 (52%), Gaps = 15/87 (17%)
Query: 223 HQPSIIFIDEIDSLLCQRS-------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGA 275
H P I+FIDEID++ +R D+ +T +L L+ +DG D ++V+ A
Sbjct: 107 HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQL----LVEMDGFEK--DTAIVVMAA 160
Query: 276 TNRPQELDEAARR--RLVKRLYIPLPD 300
TNRP LD A R R +++ I PD
Sbjct: 161 TNRPDILDPALLRPGRFDRQIAIDAPD 187
>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 = 116 bits (293), Expect = 9e-31
Identities = 40/221 (18%), Positives = 78/221 (35%), Gaps = 26/221 (11%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGE-KMVRALFAVASVHQPS 59
+LL GPP +GKT + +A + F I + + + + ++ +F A Q S
Sbjct: 67 VLLEGPPHSGKTALAAKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLS 126
Query: 60 IIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAA 119
+ +D+I+ LL ++ L+ L+ L A +L+IG T+R L E
Sbjct: 127 CVVVDDIERLLDYVPIGPRFSNLVLQA-LLVLLKKAPP-QGRKLLIIGTTSRKDVLQEM- 183
Query: 120 RRRLVKRLY--IPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTD---FSGADMAS 174
++ I +P+ +++ L + + + + + G
Sbjct: 184 --EMLNAFSTTIHVPNIATGEQLLEALELL--GNFKDKERTTIAQQVKGKKVWIGIKKLL 239
Query: 175 LCREASLGPVRSIDLSRIDALDVRPISIDDFRDALKTVRPS 215
+ E SL + F L+ S
Sbjct: 240 MLIEMSLQ-------------MDPEYRVRKFLALLREEGAS 267
Score = 51.3 bits (123), Expect = 1e-07
Identities = 21/83 (25%), Positives = 33/83 (39%), Gaps = 14/83 (16%)
Query: 205 FRDALKTVRPSVCQADFVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGAST 264
F DA K+ Q S + +D+I+ LL ++ L+ L+ L A
Sbjct: 117 FDDAYKS------------QLSCVVVDDIERLLDYVPIGPRFSNLVLQA-LLVLLKKAPP 163
Query: 265 LDDDLVLVIGATNRPQELDEAAR 287
+L+IG T+R L E
Sbjct: 164 -QGRKLLIIGTTSRKDVLQEMEM 185
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 119 bits (300), Expect = 3e-30
Identities = 71/217 (32%), Positives = 105/217 (48%), Gaps = 25/217 (11%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+LL GPPG GKT + + VA + + F S S + G G VR LF A H P I
Sbjct: 67 VLLVGPPGVGKTHLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCI 126
Query: 61 IFIDEIDSLLCQRS-------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQ 113
+FIDEID++ +R D+ +T +L L+ +DG D ++V+ ATNRP
Sbjct: 127 VFIDEIDAVGRKRGSGVGGGNDEREQTLNQL----LVEMDGFEK--DTAIVVMAATNRPD 180
Query: 114 ELDEAARR--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGAD 171
LD A R R +++ I PD + R +I+ R + V D+ + + T F GAD
Sbjct: 181 ILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDV-DLALLAKRTPGFVGAD 239
Query: 172 MASLCREASLGPVRSIDLSRIDALDVRPISIDDFRDA 208
+ +L EA+L R R I++ D +A
Sbjct: 240 LENLLNEAALLAARE---------GRRKITMKDLEEA 267
Score = 46.8 bits (112), Expect = 6e-06
Identities = 31/87 (35%), Positives = 46/87 (52%), Gaps = 15/87 (17%)
Query: 223 HQPSIIFIDEIDSLLCQRS-------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGA 275
H P I+FIDEID++ +R D+ +T +L L+ +DG D ++V+ A
Sbjct: 122 HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQL----LVEMDGFEK--DTAIVVMAA 175
Query: 276 TNRPQELDEAARR--RLVKRLYIPLPD 300
TNRP LD A R R +++ I PD
Sbjct: 176 TNRPDILDPALLRPGRFDRQIAIDAPD 202
>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 = 118 bits (298), Expect = 5e-30
Identities = 77/217 (35%), Positives = 110/217 (50%), Gaps = 25/217 (11%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
ILL GPPGTGKTL+ + VA + FF IS S + G G VR LFA A H P I
Sbjct: 52 ILLVGPPGTGKTLLARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCI 111
Query: 61 IFIDEIDSLLCQRS-------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQ 113
+FIDEID++ R D+ +T +L L+ +DG + + ++V+ ATNRP
Sbjct: 112 VFIDEIDAVGRHRGAGLGGGHDEREQTLNQL----LVEMDGFDS--KEGIIVMAATNRPD 165
Query: 114 ELDEAARR--RLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGAD 171
LD A R R K++ + PD R +I+ RN + V ++E + + T F GAD
Sbjct: 166 ILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDV-NLEIIAKRTPGFVGAD 224
Query: 172 MASLCREASLGPVRSIDLSRIDALDVRPISIDDFRDA 208
+ +L EA+L R I++ DF +A
Sbjct: 225 LENLVNEAALLAARE---------GRDKITMKDFEEA 252
Score = 46.4 bits (111), Expect = 8e-06
Identities = 30/87 (34%), Positives = 46/87 (52%), Gaps = 15/87 (17%)
Query: 223 HQPSIIFIDEIDSLLCQRS-------DQENETSRRLKTEFLISLDGASTLDDDLVLVIGA 275
H P I+FIDEID++ R D+ +T +L L+ +DG + + ++V+ A
Sbjct: 107 HAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQL----LVEMDGFDS--KEGIIVMAA 160
Query: 276 TNRPQELDEAARR--RLVKRLYIPLPD 300
TNRP LD A R R K++ + PD
Sbjct: 161 TNRPDILDPALLRPGRFDKKIVVDPPD 187
>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 = 68.0 bits (165), Expect = 1e-12
Identities = 75/382 (19%), Positives = 120/382 (31%), Gaps = 127/382 (33%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ-CKATFFCISASTLTSKWYGEGEKMVRALF--AVASVHQ 57
+L+ G G+GKT VA C + Y KM +F + + +
Sbjct: 153 VLIDGVLGSGKT----WVALDVCLS--------------YKVQCKMDFKIFWLNLKNCNS 194
Query: 58 PSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDE 117
P + E+ L + D N TSR D +S + R +
Sbjct: 195 PETVL--EMLQKLLYQIDP-NWTSR---------SDHSSNIKL----------RIHSIQA 232
Query: 118 AARRRLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCR 177
RR L + Y C +V L N+ N+ + + S C+
Sbjct: 233 ELRRLLKSKPY-------ENCLLV---LLNVQNAKAWNAF--------NLS-------CK 267
Query: 178 EASLGPVRSIDLSRIDALDVRPISIDDFRDALKTVRPSVCQADFVHQPSIIFIDEIDSLL 237
L L R + DF A T S+ H + DE+ SLL
Sbjct: 268 --IL-------------LTTRFKQVTDFLSAATTTHISL-----DHHSMTLTPDEVKSLL 307
Query: 238 CQRSDQENETSRRLKTE---FLISL------DGASTLD-------DDLVLVIGATNRPQE 281
+ D + R +S+ DG +T D D L +I ++
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS--LNV 365
Query: 282 LDEAARRRLVKRLYIPLPDEQKVP--------GSNPTMDKIDQENETSRRL-----KTEF 328
L+ A R++ RL + P +P D + N+ + E
Sbjct: 366 LEPAEYRKMFDRLSV-FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKES 424
Query: 329 LIS-----LDGASTLDDD--LH 343
IS L+ L+++ LH
Sbjct: 425 TISIPSIYLELKVKLENEYALH 446
Score = 47.5 bits (112), Expect = 5e-06
Identities = 46/280 (16%), Positives = 83/280 (29%), Gaps = 93/280 (33%)
Query: 52 VASVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNR 111
+ SV + + F+D D C+ D ++ L E + D ++
Sbjct: 21 ILSVFEDA--FVDNFD---CK--DVQDMPKSILSKEEI----------DHII------MS 57
Query: 112 PQELDEAARRRLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGAD 171
+ RL+ L +Q E+V K +EEV R+ F +
Sbjct: 58 KDAVSG------TLRLFWTLLSKQE--EMVQKF------------VEEVLRINYKFLMSP 97
Query: 172 MASLCREASLGPVRSI--------DLSRIDALDV-RPISIDDFRDALKTVRP-------- 214
+ + R+ S+ I D +V R R AL +RP
Sbjct: 98 IKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDG 157
Query: 215 -----------SVCQADFVHQ--PSIIF------IDEIDSLLCQRSDQENETSRRLKTEF 255
VC + V IF + +++L + + ++ +
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL----EMLQKLLYQIDPNW 213
Query: 256 LISLDGASTLDDDLVLVIGATNRPQELDEAARRRLVKRLY 295
D +S + R + RR L + Y
Sbjct: 214 TSRSDHSSNIKL----------RIHSIQAELRRLLKSKPY 243
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 59.1 bits (144), Expect = 1e-11
Identities = 17/85 (20%), Positives = 39/85 (45%), Gaps = 10/85 (11%)
Query: 128 YIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCREASLGPVRSI 187
+ P+E+AR +I+ R + + ++ + ++ + SGA++ +C EA + +R
Sbjct: 7 HHSHPNEEARLDILKIHSRKMNLTRGIN-LRKIAELMPGASGAEVKGVCTEAGMYALRE- 64
Query: 188 DLSRIDALDVRPISIDDFRDALKTV 212
++ +DF A+ V
Sbjct: 65 --------RRVHVTQEDFEMAVAKV 81
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 62.8 bits (152), Expect = 2e-11
Identities = 42/228 (18%), Positives = 82/228 (35%), Gaps = 27/228 (11%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQC-------KATFFCISASTLTSKWYGEGEKMVRALFAVA 53
+ G PGTGKT + +A K ++ L ++ G + + A
Sbjct: 70 MSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA 129
Query: 54 SVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQ 113
++FIDE L R D E + + L ++ DD +V++ G +R +
Sbjct: 130 ---MGGVLFIDEAYYLY--RPDNERDYGQEAIEILLQVMENNR--DDLVVILAGYADRME 182
Query: 114 EL---DEAARRRLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIE------EVGRMT 164
+ R R+ + P ++ EI +L + +T + + R
Sbjct: 183 NFFQSNPGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQ 242
Query: 165 TDFS-GADMASLCREASL---GPVRSIDLSRIDALDVRPISIDDFRDA 208
F+ + + A L + + +DA + I+ +D R +
Sbjct: 243 PHFANARSIRNALDRARLRQANRLFTASSGPLDARALSTIAEEDIRAS 290
>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 = 55.2 bits (134), Expect = 2e-10
Identities = 18/86 (20%), Positives = 39/86 (45%), Gaps = 10/86 (11%)
Query: 130 PLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCREASLGPVRSIDL 189
P P+E+AR +I+ R + + ++ + ++ + SGA++ +C EA + +R
Sbjct: 1 PPPNEEARLDILKIHSRKMNLTRGIN-LRKIAELMPGASGAEVKGVCTEAGMYALRE--- 56
Query: 190 SRIDALDVRPISIDDFRDALKTVRPS 215
++ +DF A+ V
Sbjct: 57 ------RRVHVTQEDFEMAVAKVMQK 76
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 56.0 bits (136), Expect = 6e-09
Identities = 26/82 (31%), Positives = 41/82 (50%), Gaps = 19/82 (23%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVH---- 56
++L+GPPGTGKT + + +A A ISA +TS G K +R A +
Sbjct: 53 MILWGPPGTGKTTLAEVIARYANADVERISA--VTS-----GVKEIREAIERARQNRNAG 105
Query: 57 QPSIIFIDEI--------DSLL 70
+ +I+F+DE+ D+ L
Sbjct: 106 RRTILFVDEVHRFNKSQQDAFL 127
>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 = 54.6 bits (131), Expect = 2e-08
Identities = 56/327 (17%), Positives = 98/327 (29%), Gaps = 67/327 (20%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ--CKATFFCISASTLTSKWYGEGEKMVRALFA--VASVH 56
+LL GPPGTGKT + +A + K F + S + S + E ++ +
Sbjct: 66 VLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIK 125
Query: 57 QPSIIFIDEIDSLLCQRSD-------------------QENETSRRLKTEFLISLDGAST 97
+ ++ E+ L ++ + +L SL
Sbjct: 126 ETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSIFESLQKERV 185
Query: 98 LDDDLVLVIGATNRPQELDEAARRR----LVKRLYIPLPDEQARCEIVTKLLRNITNSLT 153
D++ + + + L Y+PLP + I +T
Sbjct: 186 EAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVH------KKKEIIQDVT 239
Query: 154 VDDIEEVGRMTTDFSGADMASLCREASLGPVRSIDLSRIDALDVRPISIDDFRDAL-KTV 212
+ D++ G D+ S+ + I D R + K V
Sbjct: 240 LHDLDVANARPQ--GGQDILSMMGQLMKPKKTEIT--------------DKLRGEINKVV 283
Query: 213 RPSVCQADFVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLV 272
+ Q P ++F+DE+ L D E T E +V
Sbjct: 284 NKYIDQGIAELVPGVLFVDEVHML-----DIECFTYLHRALE-----------SSIAPIV 327
Query: 273 IGATNRPQELDEAARRRLVKRLYIPLP 299
I A+NR + + IPL
Sbjct: 328 IFASNRGNCVIRGT-EDITSPHGIPLD 353
>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 = 48.8 bits (117), Expect = 5e-08
Identities = 21/86 (24%), Positives = 35/86 (40%), Gaps = 16/86 (18%)
Query: 133 DEQARCEIVTKLLRNITNSLTVD---DIEEVGRMTTDFSGADMASLCREASLGPVRSIDL 189
D + + I IT+ + + D+E+ SGAD+ S+C+E+ + VR
Sbjct: 2 DRRQKRLI----FSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVRE--- 54
Query: 190 SRIDALDVRPISIDDFRDALKTVRPS 215
+ + DF A KTV
Sbjct: 55 ------NRYIVLAKDFEKAYKTVIKK 74
>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 = 7e-08
Identities = 43/270 (15%), Positives = 81/270 (30%), Gaps = 82/270 (30%)
Query: 7 PG------TGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAV-ASVHQ-- 57
PG G T + + A I+ + ++ K + LF + ++
Sbjct: 260 PGELRSYLKGATGHSQGLVT---AVA--IAETDSWESFFVSVRKAITVLFFIGVRCYEAY 314
Query: 58 PSIIFIDEIDSLLCQRSDQENETS-------RRLKTEFLIS-LDGA-STLDDD----LVL 104
P+ + + + S + NE L E + ++ S L + L
Sbjct: 315 PNT----SLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISL 370
Query: 105 VIGATNR-----PQELDEAARRRLVKRLYIPLPDEQARCE-------IVTKLLRNIT--- 149
V GA N PQ L L ++ P +Q+R + L +
Sbjct: 371 VNGAKNLVVSGPPQSL-YGLNLTL-RKAKAPSGLDQSRIPFSERKLKFSNRFLP-VASPF 427
Query: 150 NS--LT--VDDI-EEVGRMTTDFSGADMASLCREASLGPVRSIDLSRIDALDVRPISIDD 204
+S L D I +++ + F+ D+ PV D D+R +S
Sbjct: 428 HSHLLVPASDLINKDLVKNNVSFNAKDIQI--------PVYDTF----DGSDLRVLS--- 472
Query: 205 FRDALKTVRPSVCQADFVHQPSIIFIDEID 234
++ + I +
Sbjct: 473 -----GSISERIVDC--------IIRLPVK 489
Score = 46.2 bits (109), Expect = 1e-05
Identities = 58/376 (15%), Positives = 100/376 (26%), Gaps = 143/376 (38%)
Query: 30 SASTLTSKWY----GEG-------EKMVRALFAVASVHQPSII-FIDEIDSLLCQRSDQE 77
+ ++ G+G E +R L+ + + I L +
Sbjct: 148 AVGEGNAQLVAIFGGQGNTDDYFEE--LRDLY---QTYHVLVGDLIKFSAETLSELIRTT 202
Query: 78 NETSRRLKTEF-LIS-LDGASTLDDDLVLV--------IGATNRPQELDEAARRRLVKRL 127
+ + ++ L+ S D L+ IG Q A + +L
Sbjct: 203 LDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVI---Q----LAHYVVTAKL 255
Query: 128 YIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGAD--MASLCREASLGPVR 185
P E LR+ T A E
Sbjct: 256 LGFTPGE----------LRSYLKGATG-------------HSQGLVTAVAIAETD----- 287
Query: 186 SIDLSRIDALDVRPISIDDFRDALKT---------VRPSVCQADFVHQPSIIFIDEIDSL 236
S + F +++ VR C + P+ +
Sbjct: 288 ---------------SWESFFVSVRKAITVLFFIGVR---CYEAY---PNT----SLPPS 322
Query: 237 LCQRSDQENETS-------RRLKTEFLIS-LDGA-STLDDD----LVLVIGATNR----- 278
+ + S + NE L E + ++ S L + LV GA N
Sbjct: 323 ILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGP 382
Query: 279 PQELDEAARRRLVKRLYIPLPDEQ-KVPGSNPTMDKIDQENETSRRLK--TEFL-IS--- 331
PQ L L ++ P +Q ++P S R+LK FL ++
Sbjct: 383 PQSL-YGLNLTL-RKAKAPSGLDQSRIPFS-------------ERKLKFSNRFLPVASPF 427
Query: 332 ----LDGA-STLDDDL 342
L A ++ DL
Sbjct: 428 HSHLLVPASDLINKDL 443
Score = 42.7 bits (100), Expect = 2e-04
Identities = 42/269 (15%), Positives = 78/269 (28%), Gaps = 106/269 (39%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+ FG GK + + + S + + +G+ +F + H S
Sbjct: 1673 TIHFGGEK-GKRI---------RENY-----SAMIFETIVDGKLKTEKIFKEINEHSTSY 1717
Query: 61 IFIDEIDSLLCQRSDQENETS--------------RRLKTEFLI---------SLDG--- 94
F E L + T LK++ LI SL G
Sbjct: 1718 TFRSEKGLL--------SATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSL-GEYA 1768
Query: 95 -----ASTLD-DDLV-LV---------------IGATN------RPQE----LDEAARRR 122
A + + LV +V +G +N P + A +
Sbjct: 1769 ALASLADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQY 1828
Query: 123 LVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSG--ADMASLCREAS 180
+V+R+ EIV N+ N V +G + ++ +
Sbjct: 1829 VVERV---GKRTGWLVEIVNY---NVENQQYV--A----------AGDLRALDTVTNVLN 1870
Query: 181 LGPVRSIDLSRIDALDVRPISIDDFRDAL 209
++ ID+ L +S+++ L
Sbjct: 1871 FIKLQKIDIIE---LQK-SLSLEEVEGHL 1895
Score = 42.7 bits (100), Expect = 2e-04
Identities = 48/346 (13%), Positives = 96/346 (27%), Gaps = 121/346 (34%)
Query: 83 RLKTEFLISLDGAS---TLDDDLVLVIGATNRPQELDEAAR-----RRLVKRLYIPLPDE 134
+L+ +F L + DD+ P EL + LV+ P +
Sbjct: 32 QLQEQFNKILPEPTEGFAADDE-------PTTPAEL--VGKFLGYVSSLVE------PSK 76
Query: 135 Q-ARCEIVTKLLRNITNS-LTVDDIEE-VGRMTTDFSGADMAS--LCR---EASLGPVRS 186
+++ L N L +DI ++ + + + L + A + R
Sbjct: 77 VGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRP 136
Query: 187 IDLSRIDAL-------DVRPISI-----------DDFRDALKTVRPSVCQADFVHQPSII 228
D AL + + ++I ++ RD +T V D
Sbjct: 137 FDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLV--GDL------- 187
Query: 229 FIDEIDSLLCQRSDQENETSR-----------------RLKTEFLIS------------- 258
I L + + + ++L+S
Sbjct: 188 -IKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQL 246
Query: 259 --------------------LDGASTLDDDLV--LVIGATNRPQELDEAARRRLVKRLYI 296
L GA+ LV + I T+ + + R+ + +I
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFI 306
Query: 297 PLPDEQKVPGSN--PTMDKIDQEN-ETS-------RRLKTEFLISL 332
+ + P ++ P++ + EN E L E +
Sbjct: 307 GVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Score = 33.9 bits (77), Expect = 0.083
Identities = 26/163 (15%), Positives = 46/163 (28%), Gaps = 65/163 (39%)
Query: 192 IDALDVRPISI-----------------------DDFRDALKTVRPSVCQADFVHQPSII 228
+DA RP+++ + F L D +P+
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADD---EPTTP 57
Query: 229 ------FIDEIDSLLCQRSDQENETSRRLKT---EFLIS-LDG------ASTL--DDDLV 270
F+ + SL+ + + + L EF L+G A+ L ++D
Sbjct: 58 AELVGKFLGYVSSLV--EPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 271 L-----VI-------GATNRPQE------LDEAARRRLVKRLY 295
L +I RP + L A +L
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNA-QLV 157
Score = 33.5 bits (76), Expect = 0.11
Identities = 31/202 (15%), Positives = 57/202 (28%), Gaps = 78/202 (38%)
Query: 45 MVRALFAVASVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVL 104
M L+ + Q ++ + D G S LD +
Sbjct: 1631 MGMDLYKTSKAAQD--VW-NRAD-------------------NHFKDTYGFSILD----I 1664
Query: 105 VIGATNRPQELD---EAARRRLVKRLYIPL-----PDEQARCEIVTKLLRNITNSLTVDD 156
V N P L + + ++ Y + D + + E + K + + S T
Sbjct: 1665 V---INNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRS 1721
Query: 157 IEEVGRMT-TDF--------SGADMASLCREA------------SLGPVRSIDLSRIDAL 195
+ + ++ T F A L + SLG + + AL
Sbjct: 1722 EKGL--LSATQFTQPALTLMEKAAFEDL-KSKGLIPADATFAGHSLG-----EYA---AL 1770
Query: 196 ----DVRPISIDDFRDALKTVR 213
DV +S ++ V
Sbjct: 1771 ASLADV--MS---IESLVEVVF 1787
Score = 29.2 bits (65), Expect = 2.6
Identities = 15/44 (34%), Positives = 17/44 (38%), Gaps = 6/44 (13%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKAT-FFCISASTLTSKW---YG 40
IL FG PG G + +G T I A TL YG
Sbjct: 501 ILDFG-PG-GASGLGVLTHRNKDGTGVRVIVAGTLDINPDDDYG 542
>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 = 44.1 bits (105), Expect = 3e-06
Identities = 16/80 (20%), Positives = 35/80 (43%), Gaps = 10/80 (12%)
Query: 133 DEQARCEIVTKLLRNITNSLTVDDIEEVGRMTTDFSGADMASLCREASLGPVRSIDLSRI 192
D + R I ++++ + E + R+ + +GA++ S+C EA + +R+
Sbjct: 2 DLEGRANIFRIHSKSMSVERGIR-WELISRLCPNSTGAELRSVCTEAGMFAIRA------ 54
Query: 193 DALDVRPISIDDFRDALKTV 212
+ + DF A+ V
Sbjct: 55 ---RRKVATEKDFLKAVDKV 71
>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 = 45.0 bits (107), Expect = 1e-05
Identities = 26/83 (31%), Positives = 39/83 (46%), Gaps = 8/83 (9%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWY---GEGEKMVRAL----FAVA 53
IL+ GP G GKT I + +A A F + A+ T Y + A+
Sbjct: 53 ILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAID 112
Query: 54 SVHQPSIIFIDEIDSLLCQRSDQ 76
+V Q I+FIDEID +C++ +
Sbjct: 113 AVEQNGIVFIDEIDK-ICKKGEY 134
>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 = 40.8 bits (96), Expect = 3e-05
Identities = 14/57 (24%), Positives = 23/57 (40%), Gaps = 9/57 (15%)
Query: 156 DIEEVGRMTTDFSGADMASLCREASLGPVRSIDLSRIDALDVRPISIDDFRDALKTV 212
D++ + SGA +A++ +EA L VR + I D +A T
Sbjct: 21 DLDSLIIRNDSLSGAVIAAIMQEAGLRAVRK---------NRYVILQSDLEEAYATQ 68
>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 = 42.4 bits (99), Expect = 1e-04
Identities = 42/302 (13%), Positives = 90/302 (29%), Gaps = 60/302 (19%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKAT-----------FFCISASTLTSKWY---------- 39
L G GTGKT + K + + + ++ +
Sbjct: 48 NLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVGGTPQAVLSSLAGKL 107
Query: 40 --------GEGEKMVRALFAVASVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLIS 91
G + + +II++DE+D+L+ +R +
Sbjct: 108 TGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDIVLYQLLRSDANIS- 166
Query: 92 LDGASTLDDDLVLVIGATNR---PQELDEAARRRLVKRLYIPLPDEQARCEIVTKLLRNI 148
VI +N ++ L + D + I++K
Sbjct: 167 -------------VIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAEQLKFILSKYAEYG 213
Query: 149 TNSLTVDD--IEEVGRMTTDFSGADMASL--CREASLGPVRSIDLSRIDALDVRPISIDD 204
T DD + + ++ G ++ A+ + I V +D
Sbjct: 214 LIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQ---LASGGGIIRKEHVDKAIVDY 270
Query: 205 FRDALKTVRPSVCQADFVHQPSIIFIDEIDSL------LCQRSDQENETSRRLKTEFLIS 258
++ L ++ + S+I +++ S LC + Q+ + RR ++ +
Sbjct: 271 EQERLIEAVKALPFHYKLALRSLIESEDVMSAHKMYTDLCNKFKQKPLSYRRF-SDIISE 329
Query: 259 LD 260
LD
Sbjct: 330 LD 331
>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 = 40.7 bits (96), Expect = 4e-04
Identities = 31/78 (39%), Positives = 40/78 (51%), Gaps = 16/78 (20%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATF----FCIS-ASTLTSKWY-GEG-EKMVRALFAVA 53
ILL GP G+GKTL+ AQ A IS A++LT Y GE E ++ L +
Sbjct: 75 ILLIGPTGSGKTLM-----AQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLLQAS 129
Query: 54 SVH----QPSIIFIDEID 67
+ Q I+FIDEID
Sbjct: 130 DWNVQKAQKGIVFIDEID 147
>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 = 40.6 bits (96), Expect = 4e-04
Identities = 28/78 (35%), Positives = 40/78 (51%), Gaps = 16/78 (20%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATF----FCIS-ASTLTSKWY-GEG-EKMVRALFAVA 53
ILL GP G+GKTL+ A+ A F ++ A+TLT Y GE E +++ L
Sbjct: 54 ILLIGPTGSGKTLL-----AETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLLQKC 108
Query: 54 SVH----QPSIIFIDEID 67
Q I++ID+ID
Sbjct: 109 DYDVQKAQRGIVYIDQID 126
>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 = 41.0 bits (96), Expect = 4e-04
Identities = 18/86 (20%), Positives = 31/86 (36%), Gaps = 22/86 (25%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISAS-----------------TLTSKWYGEGE 43
+L+GPPG GKT VA + +AS ++ Y +
Sbjct: 80 AMLYGPPGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHN 139
Query: 44 KMVRALFAVASVHQPSIIFIDEIDSL 69
+ A + +I +DE+D +
Sbjct: 140 E-----EAQNLNGKHFVIIMDEVDGM 160
>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 = 39.7 bits (92), Expect = 0.001
Identities = 42/290 (14%), Positives = 88/290 (30%), Gaps = 57/290 (19%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF---------CISASTLTSKWY------------ 39
I ++G GTGKT + K V ++ F T
Sbjct: 48 IFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLADLLESLDVKVPF 107
Query: 40 ---GEGEKMVRALFAVASVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGAS 96
E R + AV +I +DEID+ + + +D + L L +
Sbjct: 108 TGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYND-----------DILYKLSRIN 156
Query: 97 TLDDDL-VLVIGATNR---PQELDEAARRRLV-KRLYIPLPDEQARCEIVTKLLRNITNS 151
+ + + IG TN LD + L + + P + + +I+TK +
Sbjct: 157 SEVNKSKISFIGITNDVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKP 216
Query: 152 LTVDD--IEEVGRMTTDFSGADMASL--CREASLGPVRSIDLSRIDALDVRPISIDDFRD 207
+ D I+ + G +L R + + + + +
Sbjct: 217 GVLPDNVIKLCAALAAREHGDARRALDLLRVS---------GEIAERMKDTKVKEEYVYM 267
Query: 208 ALKTVRPSVCQA--DFVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEF 255
A + + + + S + + + + + T+ + +
Sbjct: 268 AKEEIERDRVRDIILTLPFHSKLVLMAV--VSISSEENVVSTTGAVYETY 315
>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 = 36.9 bits (85), Expect = 0.004
Identities = 30/173 (17%), Positives = 53/173 (30%), Gaps = 38/173 (21%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
ILL G PG GKT +GK +A++ + + +A Q
Sbjct: 14 ILLTGTPGVGKTTLGKELASKSGLKYINVG--------------------DLAREEQLYD 53
Query: 61 IFIDEIDSLLCQRSDQENETSRRLKTE-FLISLDGASTLDDDLV-LVIGATNRPQELDEA 118
+ +E D + +E +++ ++ G + +V L
Sbjct: 54 GYDEEYDCPILDEDRVVDELDNQMREGGVIVDYHGCDFFPERWFHIVFVLRTDTNVL--- 110
Query: 119 ARRRLVKRLYI-PLPDEQARCEIVTKLLRN-----------ITNSLTVDDIEE 159
RL R Y + +CEI L S +++E
Sbjct: 111 -YERLETRGYNEKKLTDNIQCEIFQVLYEEATASYKEEIVHQLPSNKPEELEN 162
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 35.9 bits (83), Expect = 0.017
Identities = 33/196 (16%), Positives = 61/196 (31%), Gaps = 57/196 (29%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCK-ATFFCI---------------SASTLTSKWYGEGEK 44
+ L GPPG K+LI + + + A F S L + G E+
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQALKDE--GRYER 101
Query: 45 MVR--ALFAVASVHQPSIIFIDEIDSLLCQRSDQENETSRRLKT---------EFLISLD 93
+ A I+F+DEI + E
Sbjct: 102 LTSGYLPEA-------EIVFLDEI-----------WKAGP--AILNTLLTAINERQFRNG 141
Query: 94 GASTLDDDLVLVIGATNRPQELD---EAARRRLVKRLYIPLPDEQARCEIVTKLLRNITN 150
+ L++ A+N E D EA R++ RL++ ++A +
Sbjct: 142 A-HVEKIPMRLLVAASNELPEADSSLEALYDRMLIRLWLDKVQDKANFRS----MLTSQQ 196
Query: 151 SLTVDDIEEVGRMTTD 166
+ + + ++T +
Sbjct: 197 DENDNPVPDALQVTDE 212
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA
replication initation factor, cell cycle control factor;
HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11
c.37.1.20
Length = 389
Score = 34.8 bits (79), Expect = 0.036
Identities = 24/182 (13%), Positives = 49/182 (26%), Gaps = 37/182 (20%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ----CKATFFCISASTLTS----------------KWYG 40
L G PGTGKT+ + + A F I+ + G
Sbjct: 47 ATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRG 106
Query: 41 EGEKMVRALF--AVASVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTL 98
AL + + +D+ +L D + R + A L
Sbjct: 107 LSRDEFLALLVEHLRERDLYMFLVLDDAFNL---APDILSTFIRLGQE--------ADKL 155
Query: 99 DDDLVLVIGATNRPQ---ELDEAARRRLV-KRLYIPLPDEQARCEIVTKLLRNITNSLTV 154
+ ++ + LD + R + + + +I+ + +
Sbjct: 156 GAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSY 215
Query: 155 DD 156
+
Sbjct: 216 SE 217
>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 = 33.3 bits (77), Expect = 0.052
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
+L G PG+GK+ IG+ +A
Sbjct: 5 AVLVGLPGSGKSTIGRRLAKALGVGLL 31
>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 = 33.7 bits (78), Expect = 0.056
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ 21
+L GPPGTGKT +A
Sbjct: 41 LLFSGPPGTGKTATAIALARD 61
>1y63_A LMAJ004144AAA protein; structural genomics, protein structure
initiative, PSI, SGPP structural genomics of pathogenic
protozoa consortium; HET: ADP; 1.70A {Leishmania major}
SCOP: c.37.1.1
Length = 184
Score = 33.6 bits (76), Expect = 0.058
Identities = 31/172 (18%), Positives = 52/172 (30%), Gaps = 31/172 (18%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKA-TFFCISASTLTSKWYGEGEKMVRALFAVASVHQPS 59
IL+ G PGTGKT + + +AA+ + + +Y E + +
Sbjct: 13 ILITGTPGTGKTSMAEMIAAELDGFQHLEVGKLVKENHFYTEYDTELDTH---------- 62
Query: 60 IIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAA 119
II + D LL + L +V+V+ + E
Sbjct: 63 IIEEKDEDRLLDFMEPIMVSRGNHVVDYHSSEL--FPERWFHMVVVLHTST------EVL 114
Query: 120 RRRLVKRLYIPL-PDEQARCEIVTKLLRN-----------ITNSLTVDDIEE 159
RL KR Y E EI + + T++ +
Sbjct: 115 FERLTKRQYSEAKRAENMEAEIQCICEEEARDAYEDDIVLVRENDTLEQMAA 166
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE;
1.57A {Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 32.9 bits (76), Expect = 0.070
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
I+ G G+GK+ + + +A F
Sbjct: 7 IVFIGFMGSGKSTLARALAKDLDLVFL 33
>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 = 32.9 bits (76), Expect = 0.072
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
I L GP G GK+ IG+ +A Q F+
Sbjct: 7 IFLVGPMGAGKSTIGRQLAQQLNMEFY 33
>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta
protein., structural genomics, PSI-2, protein structure
initiative; HET: G3D; 2.20A {Bacillus subtilis} PDB:
2axp_A*
Length = 173
Score = 32.8 bits (75), Expect = 0.088
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
I+L GP K+ + ++ + K
Sbjct: 4 IILEGPDCCFKSTVAAKLSKELKYPII 30
>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 = 33.7 bits (76), Expect = 0.089
Identities = 32/257 (12%), Positives = 78/257 (30%), Gaps = 43/257 (16%)
Query: 5 GPPGTGKTLIGKCVAAQ-----------CKATFF-CISASTLTS---------------K 37
G G GKT + K + K + +A L + +
Sbjct: 59 GRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVR 118
Query: 38 WYGEGEKMVRALFAVASVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGAST 97
+ + + + + ++ +DE S+L + L T + + S
Sbjct: 119 GAPALDILKALVDNLYVENHYLLVILDEFQSML----SSPRIAAEDLYTLLRVHEEIPSR 174
Query: 98 LDDDLVLVIGATNRPQELDEAARR------RLVKRLYIPLPDEQARCEIVTKLLRNITNS 151
+ + + + + L + ++ +L++P + I+ +
Sbjct: 175 DGVNRIGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRD 234
Query: 152 LTVDD--IEEVGRMTTDFSGADMASLCREASLGPVRSIDLSRIDALDVRPISIDDFRDAL 209
+ +E + + + G D R A + + +++ D +S D R A+
Sbjct: 235 TVWEPRHLELISDVYGEDKGGDG--SARRAIVALKMACEMAEAMGRDS--LSEDLVRKAV 290
Query: 210 KTVRPSVCQADFVHQPS 226
+ Q + S
Sbjct: 291 SENEAASIQTHELEALS 307
>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 = 33.5 bits (77), Expect = 0.089
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ 21
+L GPPGTGKT +A
Sbjct: 41 LLFSGPPGTGKTATAIALARD 61
>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 = 0.090
Identities = 8/27 (29%), Positives = 12/27 (44%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
I + G G G T +G+ +A F
Sbjct: 5 IFMVGARGCGMTTVGRELARALGYEFV 31
>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop
kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex
aeolicus}
Length = 168
Score = 32.5 bits (75), Expect = 0.11
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
I L G +GK+ +G ++ F+
Sbjct: 3 IYLIGFMCSGKSTVGSLLSRSLNIPFY 29
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 32.6 bits (75), Expect = 0.11
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
I L G G GKT +G +A K +
Sbjct: 8 IYLIGLMGAGKTSVGSQLAKLTKRILY 34
>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 = 32.1 bits (74), Expect = 0.12
Identities = 6/27 (22%), Positives = 13/27 (48%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
++L G G+GK+ + + + K
Sbjct: 10 LVLIGFMGSGKSSLAQELGLALKLEVL 36
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme
function initiative, EFI, STRU genomics, transferase;
1.60A {Janibacter SP}
Length = 200
Score = 32.4 bits (73), Expect = 0.13
Identities = 9/27 (33%), Positives = 14/27 (51%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
+++ G G+GKT I VA + F
Sbjct: 32 VVVMGVSGSGKTTIAHGVADETGLEFA 58
>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 = 32.7 bits (75), Expect = 0.15
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ 21
+L GPPG GKT +A +
Sbjct: 49 LLFAGPPGVGKTTAALALARE 69
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 33.0 bits (75), Expect = 0.16
Identities = 21/96 (21%), Positives = 38/96 (39%), Gaps = 10/96 (10%)
Query: 2 LLFGPPGTGKTLIGKCVAAQCKATFFC---------ISASTLTSKWYGEGEKMVRALFAV 52
L+ GPPGTGKT+ + ++ L +K G K+VR
Sbjct: 379 LIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVDHLAAKLRDLGLKVVRLTAKS 438
Query: 53 ASVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEF 88
+ S+ + + +L+ + + E + +LK E
Sbjct: 439 REDVESSVSNL-ALHNLVGRGAKGELKNLLKLKDEV 473
>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 = 32.5 bits (75), Expect = 0.18
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 4/26 (15%)
Query: 1 IL-LFGPPGTGKTLIGKCVAAQCKAT 25
IL L GPPG GKT + K +A K+
Sbjct: 110 ILCLAGPPGVGKTSLAKSIA---KSL 132
>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 = 32.3 bits (73), Expect = 0.19
Identities = 15/77 (19%), Positives = 24/77 (31%), Gaps = 7/77 (9%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSK-WYGEGEKMVRALF------AVA 53
L GP +GKT + + C ++ G +F
Sbjct: 172 WLFKGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGE 231
Query: 54 SVHQPSIIFIDEIDSLL 70
S PS I+ +D+L
Sbjct: 232 SRDLPSGQGINNLDNLR 248
>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 = 31.7 bits (71), Expect = 0.20
Identities = 8/35 (22%), Positives = 15/35 (42%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLT 35
I+L G GK+ I +C+ + + +L
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLI 40
>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 = 31.4 bits (72), Expect = 0.23
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
I L G G GKT +GK A + F
Sbjct: 28 IFLTGYMGAGKTTLGKAFARKLNVPFI 54
>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 = 30.8 bits (70), Expect = 0.44
Identities = 12/73 (16%), Positives = 25/73 (34%), Gaps = 11/73 (15%)
Query: 1 ILLFGPPGTGKT----LIGKCVAAQCKATFFCISASTLTSK---WYGEGEKMVRALFAVA 53
+ G PG GKT K + + + L + EG + +
Sbjct: 41 LTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRLKHLMDEG----KDTKFLK 96
Query: 54 SVHQPSIIFIDEI 66
+V ++ +D++
Sbjct: 97 TVLNSPVLVLDDL 109
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase,
shikimat ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 30.5 bits (69), Expect = 0.61
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
+ L G G+GKT +GK +A TFF
Sbjct: 51 MYLVGMMGSGKTTVGKIMARSLGYTFF 77
>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 = 30.4 bits (68), Expect = 0.61
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ 21
+LL G PG+GK+ I + +A
Sbjct: 12 LLLSGHPGSGKSTIAEALANL 32
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 30.6 bits (69), Expect = 0.64
Identities = 10/75 (13%), Positives = 29/75 (38%), Gaps = 15/75 (20%)
Query: 1 ILLFGPPGTGKT----LIGKCVAAQCKATFFCISASTL-----TSKWYGEGEKMVRALFA 51
+ L+G G GK+ + ++ + + + + + G ++ + A+
Sbjct: 155 LYLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAISNGSVKEEIDAVKN 214
Query: 52 VASVHQPSIIFIDEI 66
V ++ +D+I
Sbjct: 215 V------PVLILDDI 223
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 30.6 bits (68), Expect = 0.78
Identities = 45/252 (17%), Positives = 78/252 (30%), Gaps = 44/252 (17%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKA---------TFFCISASTLTSKW------------- 38
LL+G GTGKT + + V + +A ++A + +
Sbjct: 47 ALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVR 106
Query: 39 -----YGEGEKMVRALFAVASVHQPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISLD 93
GE R + ++ + II +DEID L + Q+ + I+
Sbjct: 107 VPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLPKRPGGQD--------LLYRITRI 158
Query: 94 GASTLDDDLVLVIGATNRPQ---ELDEAARRRLV-KRLYIPLPDEQARCEIVTKLLRNIT 149
D V ++G TN L+ + L L P +I+
Sbjct: 159 NQELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAF 218
Query: 150 NSLTVDD--IEEVGRMTTDFSGADMASL--CREASLGPVRSIDLSRIDALDVRPISIDDF 205
N +D + + G +L R A R R+ V +
Sbjct: 219 NPGVLDPDVVPLCAALAAREHGDARRALDLLRVAGEIAERR-REERVRREHVYSARAEIE 277
Query: 206 RDALKTVRPSVC 217
RD + V ++
Sbjct: 278 RDRVSEVVRTLP 289
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 30.4 bits (69), Expect = 0.87
Identities = 21/174 (12%), Positives = 49/174 (28%), Gaps = 43/174 (24%)
Query: 60 IIFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDL----------VLVIGAT 109
++FIDEI +L + ++ + + G S + +++ A
Sbjct: 204 VLFIDEIATL---SLKMQQSLLTAMQEK-KFPITGQSEMSSGAMVRTEPVPCDFVLVAAG 259
Query: 110 NR--PQELDEAARRR--LVK----------------RLYIPLPDEQARCEIVTKLLRNIT 149
N ++ A R R R + ++ + + + + T
Sbjct: 260 NLDTVDKMHPALRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRD---GKIPHFT 316
Query: 150 NSLTVDDIEEVGRMTTD-----FSGADMASLCREASLGPVRSIDLSRIDALDVR 198
+ + E + D+ + R A ++ DV
Sbjct: 317 KEAVEEIVREAQKRAGRKGHLTLRLRDLGGIVRAAG-DIAVKKGKKYVEREDVI 369
Score = 28.9 bits (65), Expect = 2.7
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ 21
+LL G PGTGK+++G+ +A
Sbjct: 63 VLLIGEPGTGKSMLGQAMAEL 83
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 29.7 bits (66), Expect = 0.88
Identities = 19/108 (17%), Positives = 32/108 (29%), Gaps = 38/108 (35%)
Query: 240 RSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAARRRLVK-----RL 294
R QE E+ R+ + E R QELD A++ + +
Sbjct: 79 RLTQEPESIRKWREEQ--------------------RKRLQELDAASKVMEQEWREKAKK 118
Query: 295 YIPLPDEQKVPGSNPTMDKIDQENETSRRLKTEFLISLDGASTLDDDL 342
+ +E + ++K N R F D D+
Sbjct: 119 DL---EEWNQ-RQSEQVEKNKINN---RIADKAFY------QQPDADI 153
Score = 27.0 bits (59), Expect = 8.1
Identities = 14/68 (20%), Positives = 24/68 (35%), Gaps = 26/68 (38%)
Query: 73 RSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAARRRLVKRLYIPLP 132
R QE E+ R+ + E R QELD A++ +
Sbjct: 79 RLTQEPESIRKWREEQ--------------------RKRLQELDAASKVMEQEWR----- 113
Query: 133 DEQARCEI 140
E+A+ ++
Sbjct: 114 -EKAKKDL 120
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein
structure initiati YORK structural genomics research
consortium, nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 29.7 bits (66), Expect = 1.0
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF 27
I++ G G+GK+ +G+ +A C F
Sbjct: 21 IVVMGVSGSGKSSVGEAIAEACGYPFI 47
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 30.2 bits (67), Expect = 1.0
Identities = 19/115 (16%), Positives = 36/115 (31%), Gaps = 15/115 (13%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+L+ G PG GKT K + ++ I + +M+R + + +
Sbjct: 164 VLVDGVPGCGKT---KEILSRVNFEEDLILVPGRQAA------EMIRRRANASGIIVATK 214
Query: 61 IFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQEL 115
+ +DS L +RL +D L V + +
Sbjct: 215 DNVRTVDSFLMNYGKGARCQFKRL------FIDEGLMLHTGCVNFLVEMSLCDIA 263
>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 = 30.0 bits (68), Expect = 1.1
Identities = 22/75 (29%), Positives = 29/75 (38%), Gaps = 13/75 (17%)
Query: 1 ILLFGP-PGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRA---LFAVASVH 56
I+L P PGTGKT + K + A ++ S VR FA A+
Sbjct: 50 IILHSPSPGTGKTTVAKALCHDVNADMMFVNGS-------DCKIDFVRGPLTNFASAASF 102
Query: 57 QPS--IIFIDEIDSL 69
+I IDE D
Sbjct: 103 DGRQKVIVIDEFDRS 117
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 29.7 bits (67), Expect = 1.1
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 1 ILLFGPPGTGKTLIGKCVA 19
+ L G G GKT + +A
Sbjct: 57 LYLHGSFGVGKTYLLAAIA 75
>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 = 29.5 bits (67), Expect = 1.8
Identities = 10/12 (83%), Positives = 11/12 (91%)
Query: 1 ILLFGPPGTGKT 12
+LLFGPPG GKT
Sbjct: 41 LLLFGPPGLGKT 52
>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 = 29.1 bits (66), Expect = 1.9
Identities = 9/12 (75%), Positives = 10/12 (83%)
Query: 1 ILLFGPPGTGKT 12
+LL GPPG GKT
Sbjct: 54 VLLAGPPGLGKT 65
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 29.1 bits (66), Expect = 1.9
Identities = 8/12 (66%), Positives = 8/12 (66%)
Query: 1 ILLFGPPGTGKT 12
IL GP G GKT
Sbjct: 58 ILFSGPAGLGKT 69
>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein
struct initiative, northeast structural genomics
consortium, NESG, function; 2.40A {Bacillus halodurans}
SCOP: c.37.1.25
Length = 189
Score = 28.8 bits (64), Expect = 2.1
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 1 ILLFGPPGTGKTLIGKCVA 19
++ GP G GK+ K +A
Sbjct: 5 YIITGPAGVGKSTTCKRLA 23
>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 = 29.4 bits (66), Expect = 2.3
Identities = 10/65 (15%), Positives = 23/65 (35%), Gaps = 6/65 (9%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGE--KMVRALFAVASVHQP 58
++L G TGKT++ + VA + + +++ + S+ +
Sbjct: 1612 MMLIGASRTGKTILTRFVAWLNGLKIVQPK----IHRHSNLSDFDMILKKAISDCSLKES 1667
Query: 59 SIIFI 63
I
Sbjct: 1668 RTCLI 1672
>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 = 28.7 bits (63), Expect = 2.4
Identities = 18/251 (7%), Positives = 67/251 (26%), Gaps = 50/251 (19%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFF-------------CISASTLTSKWYGEGEKMV- 46
+ + K + V + + + + + + + +
Sbjct: 48 FYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISK 107
Query: 47 ------RALFAVASVH--------QPSIIFIDEIDSLLCQRSDQENETSRRLKTEFLISL 92
+L A+ + ++I I ++LL + + L
Sbjct: 108 ENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENLLSE--------------KILQYF 153
Query: 93 DGASTLDDDLVLVIGATNR----PQELDEAARRRLV-KRLYIPLPDEQARCEIVTKLLRN 147
+ + + + +I ++++ + + + D+ +++ L++
Sbjct: 154 EKWISSKNSKLSIICVGGHNVTIREQINIMPSLKAHFTEIKLNKVDKNELQQMIITRLKS 213
Query: 148 ITNSLTVDDIEEVGRMTTDFSGADMASLCREASLGPVRSIDLSRIDALDVRPISID--DF 205
+ V ++ + + + I+ L + ++
Sbjct: 214 LLKPFHVKVNDKKEMTIYNNIREGQNQKIPDNVIVINHKINNKIT-QLIAKNVANVSGST 272
Query: 206 RDALKTVRPSV 216
A K +V
Sbjct: 273 EKAFKICEAAV 283
>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 = 28.4 bits (63), Expect = 2.4
Identities = 8/29 (27%), Positives = 14/29 (48%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCI 29
I++ G P TGKT + + +A +
Sbjct: 8 IIVTGHPATGKTTLSQALATGLRLPLLSK 36
>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A
{Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A
1ko5_A* 1ko8_A* 1kof_A*
Length = 175
Score = 28.5 bits (63), Expect = 2.5
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATF 26
+L G G+GK+ + VA Q A F
Sbjct: 11 YVLMGVSGSGKSAVASEVAHQLHAAF 36
>2rbc_A Sugar kinase, AGR_C_4560P; ribokinase family, ATP-binding site,
structura genomics, PSI-2, protein structu initiative;
HET: MSE GOL; 1.90A {Agrobacterium tumefaciens str}
Length = 343
Score = 28.7 bits (65), Expect = 2.9
Identities = 8/54 (14%), Positives = 19/54 (35%), Gaps = 9/54 (16%)
Query: 39 YGEGEKMVRAL-FAVA----SVH----QPSIIFIDEIDSLLCQRSDQENETSRR 83
EG + A+ + + +E + + Q ++E+E + R
Sbjct: 286 MAEGMQSRAAVRLSSVAAALKCTVFGGRIGAPTREETEEAMRQWLERESEPALR 339
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 28.3 bits (63), Expect = 2.9
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 1 ILLFGPPGTGKTLIG 15
+LL G GTGKT
Sbjct: 33 VLLTGGTGTGKTTFA 47
>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 = 28.4 bits (63), Expect = 3.0
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCK 23
I LFGP TGKT I + +A
Sbjct: 107 IWLFGPATTGKTNIAEAIAHTVP 129
>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 = 28.7 bits (65), Expect = 3.0
Identities = 11/26 (42%), Positives = 12/26 (46%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATF 26
ILL G PG KTL +A F
Sbjct: 49 ILLEGVPGLAKTLSVNTLAKTMDLDF 74
>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 = 28.7 bits (64), Expect = 3.1
Identities = 9/21 (42%), Positives = 10/21 (47%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ 21
IL G GTGKTL+
Sbjct: 284 ILATGATGTGKTLLVSRFVEN 304
Score = 27.6 bits (61), Expect = 6.7
Identities = 8/15 (53%), Positives = 9/15 (60%)
Query: 1 ILLFGPPGTGKTLIG 15
L+ G GTGKTL
Sbjct: 42 TLVSGTSGTGKTLFS 56
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.0 bits (61), Expect = 3.3
Identities = 8/34 (23%), Positives = 11/34 (32%), Gaps = 15/34 (44%)
Query: 280 QELD--EAARRRLVKRLYIPLPDEQKVPGSNPTM 311
Q L +A L +LY S P +
Sbjct: 20 QALKKLQA---SL--KLY--------ADDSAPAL 40
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus
P2}
Length = 235
Score = 28.1 bits (63), Expect = 3.4
Identities = 9/15 (60%), Positives = 10/15 (66%)
Query: 1 ILLFGPPGTGKTLIG 15
I L G PGTGKT+
Sbjct: 26 IALTGEPGTGKTIFS 40
>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 = 28.7 bits (64), Expect = 3.4
Identities = 8/14 (57%), Positives = 12/14 (85%)
Query: 1 ILLFGPPGTGKTLI 14
++L GPPG+GKT+
Sbjct: 1307 LILCGPPGSGKTMT 1320
>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 = 28.3 bits (63), Expect = 3.7
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCK 23
+ GPP TGK+++ +
Sbjct: 129 LAFIGPPNTGKSMLCNSLIHFLG 151
>2cvh_A DNA repair and recombination protein RADB; filament formation,
homologous recombination, ATPase domain,
hyperthermophIle; HET: DNA; 2.20A {Thermococcus
kodakarensis} PDB: 2cvf_A*
Length = 220
Score = 27.9 bits (63), Expect = 3.9
Identities = 5/22 (22%), Positives = 9/22 (40%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQC 22
++GP +GKT +
Sbjct: 23 TQVYGPYASGKTTLALQTGLLS 44
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 28.1 bits (63), Expect = 4.0
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 1 ILLFGPPGTGKTLIG 15
+LL G PGTGKT+
Sbjct: 26 VLLSGGPGTGKTIFS 40
>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 323
Score = 28.1 bits (63), Expect = 4.2
Identities = 22/82 (26%), Positives = 35/82 (42%), Gaps = 20/82 (24%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ-----CKATFFCISASTLTSKWYGE-GEKMVRA---LFA 51
+++ G PG GKT C+A + ++AS + G +VR FA
Sbjct: 45 MIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASD-------DRGIDVVRNQIKHFA 97
Query: 52 VASVHQPS----IIFIDEIDSL 69
+H P I+ +DE DS+
Sbjct: 98 QKKLHLPPGKHKIVILDEADSM 119
>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed
alpha-beta fold, elongated beta-sheet, walker A motif,
P-loop structural motif; 1.90A {Escherichia coli} SCOP:
c.37.1.10 PDB: 1p9n_A
Length = 174
Score = 27.5 bits (60), Expect = 4.7
Identities = 26/160 (16%), Positives = 43/160 (26%), Gaps = 7/160 (4%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSKWYGEGEKMVRALFAVASVHQPSI 60
+ GTGKT + K + A T + +K + + +
Sbjct: 9 LAFAAWSGTGKTTLLKKLIPALCARGIRPGLIKHTHH-DMDVDKPGKDSYELRKAGAAQT 67
Query: 61 IFIDEIDSLLCQRSDQENETSRRLKTEFLISLDGASTLDDDLVLVIGATNRPQELDEAAR 120
I + L + E E T DL+LV G + R
Sbjct: 68 IVASQQRWALMTETPDEEELD------LQFLASRMDTSKLDLILVEGFKHEEIAKIVLFR 121
Query: 121 RRLVKRLYIPLPDEQARCEIVTKLLRNITNSLTVDDIEEV 160
R + D L L ++D+E +
Sbjct: 122 DGAGHRPEELVIDRHVIAVASDVPLNLDVALLDINDVEGL 161
>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 = 27.8 bits (62), Expect = 5.3
Identities = 21/80 (26%), Positives = 32/80 (40%), Gaps = 17/80 (21%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ-----CKATFFCISASTLTSKWYGEGEKMVRA---LFAV 52
+L +GPPGTGKT +A + ++AS G +VR FA
Sbjct: 49 LLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASD------DRGIDVVRNQIKDFAS 102
Query: 53 ASVHQPS---IIFIDEIDSL 69
+I +DE D++
Sbjct: 103 TRQIFSKGFKLIILDEADAM 122
>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 = 27.3 bits (60), Expect = 6.5
Identities = 10/19 (52%), Positives = 13/19 (68%), Gaps = 1/19 (5%)
Query: 1 ILLFGPPGTGK-TLIGKCV 18
I++ G PG GK TL+ K V
Sbjct: 3 IIITGEPGVGKTTLVKKIV 21
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay,
zinc-finger, ATP-binding, metal-BIN UPF2, UPF1,
helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A
2iyk_A
Length = 800
Score = 27.6 bits (61), Expect = 7.2
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 9/55 (16%)
Query: 2 LLFGPPGTGKTL----IGKCVAAQCKATFFCISAST-----LTSKWYGEGEKMVR 47
L+ GPPGTGKT+ I +A Q + S LT K + G K+VR
Sbjct: 375 LIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLKVVR 429
>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 = 27.1 bits (60), Expect = 8.1
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 1 ILLFGPPGTGKTLIGKCVAAQ 21
+L +GPPGTGKT + +
Sbjct: 61 MLFYGPPGTGKTSTILALTKE 81
>1tqx_A D-ribulose-5-phosphate 3-epimerase, putative; structural genomics,
protein structure initiative, PSI; 2.00A {Plasmodium
falciparum} SCOP: c.1.2.2
Length = 227
Score = 27.1 bits (61), Expect = 8.2
Identities = 11/55 (20%), Positives = 20/55 (36%), Gaps = 4/55 (7%)
Query: 141 VTKLLRNITNSLTVDD---IEEVGRMTTDFSGADMASLCREASLGPV-RSIDLSR 191
V L+ T S+ D +E + ++ + EA R I L++
Sbjct: 54 VINNLKKYTKSIFFDVHLMVEYPEKYVPLLKTSNQLTFHFEALNEDTERCIQLAK 108
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein,
ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus
radiodurans} PDB: 3gp8_A 3gpl_A*
Length = 574
Score = 27.4 bits (61), Expect = 8.3
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 2 LLFGPPGTGKTLIGKCVAAQCKATFFCISASTLTSK 37
+L G PGTGK+ K VA ++ + T K
Sbjct: 208 VLTGGPGTGKSTTTKAVADLAESLGLEVGLCAPTGK 243
>2p0l_A Lipoate-protein ligase A; PFAM, lopoate-protein ligase A, 10425H,
structural genomics, structure initiative, PSI-2; 2.04A
{Streptococcus agalactiae} SCOP: d.104.1.3
Length = 288
Score = 26.9 bits (59), Expect = 8.8
Identities = 15/96 (15%), Positives = 31/96 (32%), Gaps = 1/96 (1%)
Query: 155 DDIEEVGRMTTDFSGADMASLCREASLGPVRSIDLSRIDALDVRPISIDDFRDALKTVRP 214
D + +M +DF + + V ++ + L P++++D D +
Sbjct: 184 GDQKGRSQMISDFYKIGLGDTGSPIAYPNVDPEIMANLSDLLDCPMTVEDVIDRMLISLK 243
Query: 215 SVCQADFVHQPSIIFIDEIDSLLCQRSDQENETSRR 250
V D + + E D +S R
Sbjct: 244 QVGFNDRLLMIRPDLVAEFDRFQ-AKSMANKGMVSR 278
>2qwt_A Transcriptional regulator, TETR family; structural genomics, PSI-2,
protein structure initiative; 2.30A {Mycobacterium
vanbaalenii pyr-1}
Length = 196
Score = 26.6 bits (59), Expect = 9.5
Identities = 5/25 (20%), Positives = 9/25 (36%)
Query: 100 DDLVLVIGATNRPQELDEAARRRLV 124
+ ++ PQ D R+V
Sbjct: 151 AVIKALLVVCKVPQVYDGEVSERVV 175
Score = 26.6 bits (59), Expect = 9.5
Identities = 5/25 (20%), Positives = 9/25 (36%)
Query: 267 DDLVLVIGATNRPQELDEAARRRLV 291
+ ++ PQ D R+V
Sbjct: 151 AVIKALLVVCKVPQVYDGEVSERVV 175
>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide
biosynthesis, nucleotide-binding, transferase,
structural genomics; 1.80A {Thermus thermophilus}
Length = 186
Score = 26.7 bits (60), Expect = 9.5
Identities = 6/11 (54%), Positives = 8/11 (72%)
Query: 1 ILLFGPPGTGK 11
++ GPPG GK
Sbjct: 7 VIFLGPPGAGK 17
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 0.385
Gapped
Lambda K H
0.267 0.0529 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,245,929
Number of extensions: 323508
Number of successful extensions: 1198
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1093
Number of HSP's successfully gapped: 192
Length of query: 343
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 249
Effective length of database: 4,077,219
Effective search space: 1015227531
Effective search space used: 1015227531
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.6 bits)