RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7809
(343 letters)
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 362 bits (932), Expect = e-126
Identities = 114/317 (35%), Positives = 167/317 (52%), Gaps = 36/317 (11%)
Query: 37 ELTALVEKDIVQTDTGVGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFG 96
+L L+ +IV+ V W DIAG D KQ +E ++LP + P+LF G+ P +G+LLFG
Sbjct: 2 KLVQLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAPAKGLLLFG 61
Query: 97 PPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDE 156
PPG GKTLLA+AVA++ +TF N+ +SLTSK+ G+ EKLVRALF AR P++IFIDE
Sbjct: 62 PPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDE 121
Query: 157 VDAFCS--GSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKRRFE 214
VD+ S S EHEA+RR++ E L DG+ ++VLAATN P +LDEA RRF
Sbjct: 122 VDSLLSERSSSEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALRRFT 181
Query: 215 KRI--------SPIQIIGLCLGEIRKDPNV-DVATLSKQLIGYSGSDIRDLCQEIILIAA 265
KR+ + ++ L + + + L+K GYSGSD+ L ++ L
Sbjct: 182 KRVYVSLPDEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAALEPI 241
Query: 266 REVIQNAGFTGVNSKPPDGRNNIGAKGDDSKCQVAPLGSDRIVLNRSHFERAKEKCRKSV 325
RE+ + + F + ++ R+SV
Sbjct: 242 RELNVE------------------QVKCLDISAMRA-------ITEQDFHSSLKRIRRSV 276
Query: 326 DGALIRKYKRWNELYGS 342
+ Y++W++ YG
Sbjct: 277 APQSLNSYEKWSQDYGD 293
>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 = 363 bits (933), Expect = e-126
Identities = 118/315 (37%), Positives = 169/315 (53%), Gaps = 19/315 (6%)
Query: 46 IVQTDTGVGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLL 105
I+ V W+D+AGL+ K+ KE ++LP P LFKG +P GILL+GPPGTGK+ L
Sbjct: 8 ILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNRKPTSGILLYGPPGTGKSYL 67
Query: 106 AKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDAFCS--G 163
AKAVA++ STFF+V S L SK GESEKLV+ LF AR P++IFID+VDA G
Sbjct: 68 AKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRG 127
Query: 164 SREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKRRFEKRI------ 217
E EA+RR++ ELL M+GV G+ +GVLVL ATN PW LD A++RRFE+RI
Sbjct: 128 EGESEASRRIKTELLVQMNGV--GNDSQGVLVLGATNIPWQLDSAIRRRFERRIYIPLPD 185
Query: 218 --SPIQIIGLCLGEIRKD-PNVDVATLSKQLIGYSGSDIRDLCQEIILIAAREVIQNAGF 274
+ + + +G+ D TL GYSGSDI + ++ ++ R++ F
Sbjct: 186 LAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATHF 245
Query: 275 TGVNSKPPDGRNNIGAKGDDSKCQVAPLGSDRI------VLNRSHFERAKEKCRKSVDGA 328
V+++ + R D L F +A + R +V+
Sbjct: 246 KDVSTEDDETRKLTPCSPGDDGAIEMSWTDIEADELKEPDLTIKDFLKAIKSTRPTVNED 305
Query: 329 LIRKYKRWNELYGSR 343
+ K +++ +G
Sbjct: 306 DLLKQEQFTRDFGQE 320
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 361 bits (928), Expect = e-124
Identities = 128/358 (35%), Positives = 186/358 (51%), Gaps = 41/358 (11%)
Query: 1 MDTTKTNGATPKLAVVEKGKPRTGVPKVGPN----RRANPELTALVEKDIVQTDTGVGWD 56
T+ TPK K T + + R + L L+ +IV T V +D
Sbjct: 56 GPAPTTHKGTPKTNRTNKPSTPTTATRKKKDLKNFRNVDSNLANLIMNEIVDNGTAVKFD 115
Query: 57 DIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQHGST 116
DIAG D KQ +E ++LP L P+LF G+ P RG+LLFGPPG GKT+LAKAVA++ +T
Sbjct: 116 DIAGQDLAKQALQEIVILPSLRPELFTGLRAPARGLLLFGPPGNGKTMLAKAVAAESNAT 175
Query: 117 FFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDAFCS--GSREHEATRRVR 174
FFN+ +SLTSK+ GE EKLVRALF AR P++IFID+VD+ EH+A+RR++
Sbjct: 176 FFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERREGEHDASRRLK 235
Query: 175 CELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKRRFEKRI--------SPIQIIGLC 226
E L DGV + +GD VLV+ ATN P +LDEA+ RRF KR+ + + ++
Sbjct: 236 TEFLIEFDGVQS-AGDDRVLVMGATNRPQELDEAVLRRFIKRVYVSLPNEETRLLLLKNL 294
Query: 227 LGEIRKD-PNVDVATLSKQLIGYSGSDIRDLCQEIILIAAREVIQNAGFTGVNSKPPDGR 285
L + ++A L++ GYSGSD+ L ++ L RE+
Sbjct: 295 LCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAALGPIRELKPE-------------- 340
Query: 286 NNIGAKGDDSKCQVAPLGSDRIVLNRSHFERAKEKCRKSVDGALIRKYKRWNELYGSR 343
+ S ++ + S F + +K ++SV + Y RWN+ +G
Sbjct: 341 ----QVKNMSASEMRN-------IRLSDFTESLKKIKRSVSPQTLEAYIRWNKDFGDT 387
>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 = 357 bits (917), Expect = e-123
Identities = 120/348 (34%), Positives = 177/348 (50%), Gaps = 37/348 (10%)
Query: 6 TNGATPKLAVVEKGKPRTGVPKVGPNRRANPELTALVEKDIVQTDTGVGWDDIAGLDNVK 65
+ G P + P++ L+ +I+ V W+DIAG++ K
Sbjct: 34 EQNGGMQCKPYGAGPTEPAHPVDERLKNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAK 93
Query: 66 QIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSL 125
KE ++ P L P +F G+ P +GILLFGPPGTGKTL+ K +ASQ G+TFF++ SSL
Sbjct: 94 ATIKEIVVWPMLRPDIFTGLRGPPKGILLFGPPGTGKTLIGKCIASQSGATFFSISASSL 153
Query: 126 TSKHYGESEKLVRALFETARARAPAVIFIDEVDAFCS--GSREHEATRRVRCELLSHMDG 183
TSK GE EK+VRALF AR + PAVIFIDE+D+ S G EHE++RR++ E L +DG
Sbjct: 154 TSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIKTEFLVQLDG 213
Query: 184 VGTGSGDKGVLVLAATNHPWDLDEALKRRFEKRI--------SPIQIIGLCLGEIRKD-P 234
T S + +LV+ ATN P ++DEA +RR KR+ + QI+ + + +
Sbjct: 214 ATT-SSEDRILVVGATNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLS 272
Query: 235 NVDVATLSKQLIGYSGSDIRDLCQEIILIAAREVIQNAGFTGVNSKPPDGRNNIGAKGDD 294
++ + +Q +SG+D+ LC+E L R + + + PD
Sbjct: 273 EEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQT----ADIATITPD----------- 317
Query: 295 SKCQVAPLGSDRIVLNRSHFERAKEKCRKSVDGALIRKYKRWNELYGS 342
QV P + FE A R SV + Y+ WN+ +G
Sbjct: 318 ---QVRP-------IAYIDFENAFRTVRPSVSPKDLELYENWNKTFGC 355
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 353 bits (907), Expect = e-122
Identities = 120/322 (37%), Positives = 171/322 (53%), Gaps = 26/322 (8%)
Query: 46 IVQTDTGVGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLL 105
IV V W D+AGL+ K+ KE ++LP P LF G PWRGILLFGPPGTGK+ L
Sbjct: 2 IVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYL 61
Query: 106 AKAVASQ-HGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDAFCS-- 162
AKAVA++ + STFF++ S L SK GESEKLV+ LF+ AR P++IFIDE+D+ C
Sbjct: 62 AKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSR 121
Query: 163 GSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKRRFEKRI----- 217
E EA RR++ E L M GVG + G+LVL ATN PW LD A++RRFEKRI
Sbjct: 122 SENESEAARRIKTEFLVQMQGVGV--DNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLP 179
Query: 218 ---SPIQIIGLCLGEIRKD-PNVDVATLSKQLIGYSGSDIRDLCQEIILIAAREVIQNAG 273
+ + L LG + D L ++ GYSG+DI + ++ ++ R+V
Sbjct: 180 EPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRKVQSATH 239
Query: 274 FTGVNSKPPDGRNNIGAKGDDSKCQVAP---------LGSDRIV---LNRSHFERAKEKC 321
F V N++ P + D+++ ++ S R+
Sbjct: 240 FKKVRGPSRADPNHLVDDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMSDMLRSLSNT 299
Query: 322 RKSVDGALIRKYKRWNELYGSR 343
+ +V+ + K K++ E +G
Sbjct: 300 KPTVNEHDLLKLKKFTEDFGQE 321
>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 = 349 bits (896), Expect = e-120
Identities = 121/343 (35%), Positives = 176/343 (51%), Gaps = 19/343 (5%)
Query: 18 KGKPRTGVPKVGPNRRANPELTALVEKDIVQTDTGVGWDDIAGLDNVKQIFKETLLLPKL 77
K + N +L + I+ V W+D+AGL+ K+ KE ++LP
Sbjct: 13 GNKKISQEEGEDNGGEDNKKLRGALSSAILSEKPNVKWEDVAGLEGAKEALKEAVILPVK 72
Query: 78 MPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGESEKLV 137
P LFKG +P GILL+GPPGTGK+ LAKAVA++ STFF+V S L SK GESEKLV
Sbjct: 73 FPHLFKGNRKPTSGILLYGPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLV 132
Query: 138 RALFETARARAPAVIFIDEVDAFCS--GSREHEATRRVRCELLSHMDGVGTGSGDKGVLV 195
+ LF AR P++IFID+VDA G E EA+RR++ ELL M+GV G+ +GVLV
Sbjct: 133 KQLFAMARENKPSIIFIDQVDALTGTRGEGESEASRRIKTELLVQMNGV--GNDSQGVLV 190
Query: 196 LAATNHPWDLDEALKRRFEKRI--------SPIQIIGLCLGEIR-KDPNVDVATLSKQLI 246
L ATN PW LD A++RRFE+RI + + + +G+ D TL
Sbjct: 191 LGATNIPWQLDSAIRRRFERRIYIPLPDLAARTTMFEINVGDTPSVLTKEDYRTLGAMTE 250
Query: 247 GYSGSDIRDLCQEIILIAAREVIQNAGFTGVNSKPPDGRNNIGAKGDDSKCQVAPLGSDR 306
GYSGSDI + ++ ++ R++ F V+++ + R + D
Sbjct: 251 GYSGSDIAVVVKDALMQPIRKIQSATHFKDVSTEDDETRKLTPSSPGDDGAIEMSWTDIE 310
Query: 307 I------VLNRSHFERAKEKCRKSVDGALIRKYKRWNELYGSR 343
L F +A + R +V+ + K +++ +G
Sbjct: 311 ADELKEPDLTIKDFLKAIKSTRPTVNEDDLLKQEQFTRDFGQE 353
>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 = 340 bits (872), Expect = e-115
Identities = 126/370 (34%), Positives = 179/370 (48%), Gaps = 29/370 (7%)
Query: 1 MDTTKTNGATPKLAVVEKGKPRTGVPKVGPNRRANPELTALVEK---DIVQTDTGVGWDD 57
+ + P G G +PE L + IV V W D
Sbjct: 76 LKKKEKKPQKPVKEEQSGPVDEKGNDSDGEAESDDPEKKKLQNQLQGAIVIERPNVKWSD 135
Query: 58 IAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQ-HGST 116
+AGL+ K+ KE ++LP P LF G PWRGILLFGPPGTGK+ LAKAVA++ + ST
Sbjct: 136 VAGLEGAKEALKEAVILPIKFPHLFTGKRTPWRGILLFGPPGTGKSYLAKAVATEANNST 195
Query: 117 FFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDAFCS--GSREHEATRRVR 174
FF++ S L SK GESEKLV+ LF+ AR P++IFIDE+D+ C E EA RR++
Sbjct: 196 FFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRSENESEAARRIK 255
Query: 175 CELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKRRFEKRI--------SPIQIIGLC 226
E L M GV G + G+LVL ATN PW LD A++RRFEKRI + + L
Sbjct: 256 TEFLVQMQGV--GVDNDGILVLGATNIPWVLDSAIRRRFEKRIYIPLPEAHARAAMFRLH 313
Query: 227 LGEIRKD-PNVDVATLSKQLIGYSGSDIRDLCQEIILIAAREVIQNAGFTGVNSKPPDGR 285
LG + D L ++ GYSG+DI + ++ ++ R+V F V
Sbjct: 314 LGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQPVRKVQSATHFKKVRGPSRADP 373
Query: 286 NNIGAKGDDSKCQVAP---------LGSDRIV---LNRSHFERAKEKCRKSVDGALIRKY 333
N I P + D+++ ++ R+ + +V+ + K
Sbjct: 374 NCIVNDLLTPCSPGDPGAIEMTWMDVPGDKLLEPVVSMWDMLRSLSSTKPTVNEQDLLKL 433
Query: 334 KRWNELYGSR 343
K++ E +G
Sbjct: 434 KKFTEDFGQE 443
>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 = 235 bits (603), Expect = 2e-76
Identities = 96/302 (31%), Positives = 154/302 (50%), Gaps = 31/302 (10%)
Query: 53 VGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGI-LRPWRGILLFGPPGTGKTLLAKAVAS 111
V W+DI GL++VK+ +E + P P F + P +G+L +GPPG GKTLLAKA+A+
Sbjct: 12 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 71
Query: 112 QHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDAFC-----SGSRE 166
+ + F ++ L + +GESE VR +F+ AR AP V+F DE+D+ +
Sbjct: 72 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDG 131
Query: 167 HEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RFEKRI------- 217
A RV ++L+ MDG+ T K V ++ ATN P +D A+ R R ++ I
Sbjct: 132 GGAADRVINQILTEMDGMSTK---KNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE 188
Query: 218 -SPIQIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAAREVIQNAGFTG 276
S + I+ L + +VD+ L+K G+SG+D+ ++CQ +A RE I++
Sbjct: 189 KSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESE--IR 246
Query: 277 VNSKPPDGRNNIGAKGDDSKCQVAPLGSDRIVLNRSHFERAKEKCRKSVDGALIRKYKRW 336
+ + + + DD ++ R HFE A R+SV IRKY+ +
Sbjct: 247 RERERQTNPSAMEVEEDDPVPEIR----------RDHFEEAMRFARRSVSDNDIRKYEMF 296
Query: 337 NE 338
+
Sbjct: 297 AQ 298
>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 = 246 bits (629), Expect = 3e-75
Identities = 94/302 (31%), Positives = 149/302 (49%), Gaps = 31/302 (10%)
Query: 53 VGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGI-LRPWRGILLFGPPGTGKTLLAKAVAS 111
V W+DI GL++VK+ +E + P P F + P +G+L +GPPG GKTLLAKA+A+
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 112 QHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDAFC-----SGSRE 166
+ + F ++ L + +GESE VR +F+ AR AP V+F DE+D+ +
Sbjct: 534 ECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDG 593
Query: 167 HEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RFEKRI------- 217
A RV ++L+ MDG+ S K V ++ ATN P +D A+ R R ++ I
Sbjct: 594 GGAADRVINQILTEMDGM---STKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE 650
Query: 218 -SPIQIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAAREVIQNAGFTG 276
S + I+ L + +VD+ L+K G+SG+D+ ++CQ +A RE I++
Sbjct: 651 KSRVAILKANLRKSPVAKDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIES----- 705
Query: 277 VNSKPPDGRNNIGAKGDDSKCQVAPLGSDRIVLNRSHFERAKEKCRKSVDGALIRKYKRW 336
+ + + R HFE A R+SV IRKY+ +
Sbjct: 706 -------EIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAMRFARRSVSDNDIRKYEMF 758
Query: 337 NE 338
+
Sbjct: 759 AQ 760
Score = 207 bits (529), Expect = 5e-61
Identities = 100/323 (30%), Positives = 155/323 (47%), Gaps = 37/323 (11%)
Query: 15 VVEKGKPRTGVPKVGPNRRANPELTALVEKDIVQTDTGVGWDDIAGLDNVKQIFKETLLL 74
V + P + V P+ + E + +D ++ VG+DD+ G KE + L
Sbjct: 164 KVVETDP-SPYCIVAPDTVIHCEGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVEL 222
Query: 75 PKLMPQLFKGI-LRPWRGILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGES 133
P P LFK I ++P RGILL+GPPGTGKTL+A+AVA++ G+ FF + + SK GES
Sbjct: 223 PLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGES 282
Query: 134 EKLVRALFETARARAPAVIFIDEVDAFC--SGSREHEATRRVRCELLSHMDGVGTGSGDK 191
E +R FE A APA+IFIDE+DA E RR+ +LL+ MDG+
Sbjct: 283 ESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGL---KQRA 339
Query: 192 GVLVLAATNHPWDLDEALKR--RFEKRIS-PI-------QIIGLCLGEIRKDPNVDVATL 241
V+V+AATN P +D AL+R RF++ + I +I+ + ++ +VD+ +
Sbjct: 340 HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQV 399
Query: 242 SKQLIGYSGSDIRDLCQEIILIAAREVIQNAGFTGVNSKPPDGRNNIGAKGDDSKCQVAP 301
+ + G+ G+D+ LC E L A R+ + D +
Sbjct: 400 ANETHGHVGADLAALCSEAALQAIRKKMDLI--------------------DLEDETIDA 439
Query: 302 LGSDRIVLNRSHFERAKEKCRKS 324
+ + + F A + S
Sbjct: 440 EVMNSLAVTMDDFRWALSQSNPS 462
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 214 bits (548), Expect = 2e-68
Identities = 92/291 (31%), Positives = 140/291 (48%), Gaps = 47/291 (16%)
Query: 53 VGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGI-LRPWRGILLFGPPGTGKTLLAKAVAS 111
V W DI L+++++ +L P P FK + L G+LL GPPG GKTLLAKAVA+
Sbjct: 7 VTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVAN 66
Query: 112 QHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDAFCS--GSREHEA 169
+ G F +V L + + GESE+ VR +F+ A+ AP VIF DEVDA C RE A
Sbjct: 67 ESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRSDRETGA 126
Query: 170 TRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RFEKRI--------SP 219
+ RV +LL+ MDG+ + V ++AATN P +D A+ R R +K +
Sbjct: 127 SVRVVNQLLTEMDGL---EARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPPADR 183
Query: 220 IQIIGLCLGEIRK---DPNVDVATLSKQLI--GYSGSDIRDLCQEIILIAAREVIQNAGF 274
+ I+ K D +V++ ++ L Y+G+D+ L +E + A R+ +
Sbjct: 184 LAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEMAR--- 240
Query: 275 TGVNSKPPDGRNNIGAKGDDSKCQVAPLGSDRIVLNRSHFERAKEKCRKSV 325
Q + + ++ HFE A +K R S+
Sbjct: 241 -----------------------QKSGNEKGELKVSHKHFEEAFKKVRSSI 268
>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 = 213 bits (545), Expect = 1e-65
Identities = 101/323 (31%), Positives = 154/323 (47%), Gaps = 37/323 (11%)
Query: 15 VVEKGKPRTGVPKVGPNRRANPELTALVEKDIVQTDTGVGWDDIAGLDNVKQIFKETLLL 74
V + P V P+ + E + +D ++ VG+DDI G KE + L
Sbjct: 164 KVVETDPS-PYCIVAPDTVIHCEGEPIKREDEEESLNEVGYDDIGGCRKQLAQIKEMVEL 222
Query: 75 PKLMPQLFKGI-LRPWRGILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGES 133
P P LFK I ++P RGILL+GPPGTGKTL+A+AVA++ G+ FF + + SK GES
Sbjct: 223 PLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGES 282
Query: 134 EKLVRALFETARARAPAVIFIDEVDAFCS--GSREHEATRRVRCELLSHMDGVGTGSGDK 191
E +R FE A APA+IFIDE+DA E RR+ +LL+ MDG+
Sbjct: 283 ESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGL---KQRA 339
Query: 192 GVLVLAATNHPWDLDEALKR--RFEKRIS-PI-------QIIGLCLGEIRKDPNVDVATL 241
V+V+AATN P +D AL+R RF++ + I +I+ + ++ +VD+ +
Sbjct: 340 HVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQV 399
Query: 242 SKQLIGYSGSDIRDLCQEIILIAAREVIQNAGFTGVNSKPPDGRNNIGAKGDDSKCQVAP 301
+ + G+ G+D+ LC E L A R+ + D +
Sbjct: 400 ANETHGHVGADLAALCSEAALQAIRKKMD--------------------LIDLEDETIDA 439
Query: 302 LGSDRIVLNRSHFERAKEKCRKS 324
+ + + F A + S
Sbjct: 440 EVMNSLAVTMDDFRWALSQSNPS 462
Score = 31.3 bits (71), Expect = 0.41
Identities = 5/14 (35%), Positives = 7/14 (50%)
Query: 53 VGWDDIAGLDNVKQ 66
V W+DI G +
Sbjct: 474 VTWEDIGGRSHHHH 487
>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 = 86/235 (36%), Positives = 132/235 (56%), Gaps = 27/235 (11%)
Query: 53 VGWDDIAGLDNVKQIFKETLLLPKLMPQLFK--GILRPWRGILLFGPPGTGKTLLAKAVA 110
V ++DI GL+ Q +E + LP P+LF+ GI P +GILL+GPPGTGKTLLAKAVA
Sbjct: 14 VRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGI-EPPKGILLYGPPGTGKTLLAKAVA 72
Query: 111 SQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDAF--------CS 162
++ +TF V+ S L K GE LV+ +F+ A+ +AP++IFIDE+DA
Sbjct: 73 TETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTG 132
Query: 163 GSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RFEKRI--- 217
G RE +R +LL+ MDG V ++ ATN P LD A+ R RF++ I
Sbjct: 133 GDRE---VQRTLMQLLAEMDGF---DARGDVKIIGATNRPDILDPAILRPGRFDRIIEVP 186
Query: 218 -----SPIQIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAARE 267
++I+ + ++ +V++ ++K G G++++ +C E + A RE
Sbjct: 187 APDEKGRLEILKIHTRKMNLAEDVNLEEIAKMTEGCVGAELKAICTEAGMNAIRE 241
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 154 bits (390), Expect = 9e-45
Identities = 47/244 (19%), Positives = 87/244 (35%), Gaps = 25/244 (10%)
Query: 56 DDIAGLDNVKQIFKETLLLPKLMPQLFKGI-LRPWRGILLFGPPGTGKTLLAKAVASQHG 114
+ + G + ++ K ++ + ++G G GK+ + V + G
Sbjct: 4 NKLDGFYIAPAFMDKLVVHI--TKNFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMG 61
Query: 115 STFFNVLPSSLTSKHYGESEKLVRALFETA----RARAPAVIFIDEVDAFC---SGSREH 167
+ L S + GE KL+R + A R +FI+++DA G+ ++
Sbjct: 62 INPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQY 121
Query: 168 EATRRVRCELLSH---------MDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RFEKR 216
++ L + + G+ + V ++ N L L R R EK
Sbjct: 122 TVNNQMVNATLMNIADNPTNVQLPGMYNKQENARVPIIVTGNDFSTLYAPLIRDGRMEKF 181
Query: 217 I---SPIQIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAAREVIQNAG 273
+ IG+C G R D NV + K + + G I + EV +
Sbjct: 182 YWAPTREDRIGVCTGIFRTD-NVPAEDVVKIVDNFPGQSIDFFGALRARVYDDEVRKWVS 240
Query: 274 FTGV 277
TG+
Sbjct: 241 GTGI 244
>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 = 143 bits (362), Expect = 6e-41
Identities = 84/240 (35%), Positives = 120/240 (50%), Gaps = 33/240 (13%)
Query: 52 GVGWDDIAGLDNVKQIFKET---LLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKA 108
GV + D+AG+ K +E L P+ QL + P +G LL GPPG GKTLLAKA
Sbjct: 2 GVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAKV--P-KGALLLGPPGCGKTLLAKA 58
Query: 109 VASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDA--------- 159
VA++ F + + G VR+LF+ ARARAP +++IDE+DA
Sbjct: 59 VATEAQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTM 118
Query: 160 FCSGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RFEKRI 217
+ E E T +LL MDG+GT V+VLA+TN LD AL R R ++ +
Sbjct: 119 SGFSNTEEEQTLN---QLLVEMDGMGT---TDHVIVLASTNRADILDGALMRPGRLDRHV 172
Query: 218 S---P-----IQIIGLCLGEIRKDPNVDVAT--LSKQLIGYSGSDIRDLCQEIILIAARE 267
P +I L ++ + + L++ G+SG+DI ++C E L AARE
Sbjct: 173 FIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAARE 232
>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 = 140 bits (354), Expect = 9e-40
Identities = 86/242 (35%), Positives = 132/242 (54%), Gaps = 26/242 (10%)
Query: 46 IVQTDTGVGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGI-LRPWRGILLFGPPGTGKTL 104
I V + D+AG + K+ E + K P+ + + + +G+LL GPPGTGKTL
Sbjct: 1 INAEKPNVRFKDMAGNEEAKEEVVEIVDFLK-YPERYANLGAKIPKGVLLVGPPGTGKTL 59
Query: 105 LAKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDA----- 159
LAKAVA + FF++ SS G VR LFETA+ +AP++IFIDE+DA
Sbjct: 60 LAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSR 119
Query: 160 ----FCSGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RF 213
SG+ E E T +LL+ MDG GS + V+VLAATN P LD AL R RF
Sbjct: 120 AAGGVVSGNDEREQTLN---QLLAEMDGF--GSENAPVIVLAATNRPEILDPALMRPGRF 174
Query: 214 EKRIS---P-----IQIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAA 265
++++ P ++I+ + + ++ +V++ ++K G +G+D+ ++ E L+A
Sbjct: 175 DRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVAKLTAGLAGADLANIINEAALLAG 234
Query: 266 RE 267
R
Sbjct: 235 RN 236
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 136 bits (344), Expect = 2e-38
Identities = 81/234 (34%), Positives = 123/234 (52%), Gaps = 26/234 (11%)
Query: 53 VGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGI-LRPWRGILLFGPPGTGKTLLAKAVAS 111
+ D+AG D K+ E + + P F+ + + +G+L+ GPPGTGKTLLAKA+A
Sbjct: 9 TTFADVAGCDEAKEEVAELVEYLR-EPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAG 67
Query: 112 QHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDA--------FCSG 163
+ FF + S G VR +FE A+ AP +IFIDE+DA G
Sbjct: 68 EAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGG 127
Query: 164 SREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RFEKRI---S 218
E E T ++L MDG G++G++V+AATN P LD AL R RF++++
Sbjct: 128 HDEREQTLN---QMLVEMDGFE---GNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGL 181
Query: 219 P-----IQIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAARE 267
P QI+ + + + P++D A +++ G+SG+D+ +L E L AAR
Sbjct: 182 PDVRGREQILKVHMRRVPLAPDIDAAIIARGTPGFSGADLANLVNEAALFAARG 235
>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 = 136 bits (344), Expect = 2e-38
Identities = 86/243 (35%), Positives = 122/243 (50%), Gaps = 26/243 (10%)
Query: 44 KDIVQTDTGVGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGI-LRPWRGILLFGPPGTGK 102
++ V + D+AG + K+ KE + K P F + R +G+LL GPPG GK
Sbjct: 4 GSVLTEAPKVTFKDVAGAEEAKEELKEIVEFLK-NPSRFHEMGARIPKGVLLVGPPGVGK 62
Query: 103 TLLAKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDA--- 159
T LA+AVA + F S G VR LFETA+ AP ++FIDE+DA
Sbjct: 63 THLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGR 122
Query: 160 -----FCSGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--R 212
G+ E E T +LL MDG D ++V+AATN P LD AL R R
Sbjct: 123 KRGSGVGGGNDEREQTLN---QLLVEMDGFE---KDTAIVVMAATNRPDILDPALLRPGR 176
Query: 213 FEKRI---SP-----IQIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIA 264
F+++I +P QI+ + +VD+A L+K+ G+ G+D+ +L E L+A
Sbjct: 177 FDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLA 236
Query: 265 ARE 267
ARE
Sbjct: 237 ARE 239
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 135 bits (343), Expect = 6e-38
Identities = 86/234 (36%), Positives = 120/234 (51%), Gaps = 26/234 (11%)
Query: 53 VGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGI-LRPWRGILLFGPPGTGKTLLAKAVAS 111
V + D+AG + K+ KE + K P F + R +G+LL GPPG GKT LA+AVA
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEFLK-NPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG 95
Query: 112 QHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDA--------FCSG 163
+ F S G VR LFETA+ AP ++FIDE+DA G
Sbjct: 96 EARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGG 155
Query: 164 SREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RFEKRI---S 218
+ E E T +LL MDG D ++V+AATN P LD AL R RF+++I +
Sbjct: 156 NDEREQTLN---QLLVEMDGFE---KDTAIVVMAATNRPDILDPALLRPGRFDRQIAIDA 209
Query: 219 P-----IQIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAARE 267
P QI+ + +VD+A L+K+ G+ G+D+ +L E L+AARE
Sbjct: 210 PDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAARE 263
>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 = 126 bits (317), Expect = 3e-34
Identities = 36/222 (16%), Positives = 78/222 (35%), Gaps = 23/222 (10%)
Query: 53 VGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQ 112
+ I + + L + P +LL GPP +GKT LA +A +
Sbjct: 30 YIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRT--PLVSVLLEGPPHSGKTALAAKIAEE 87
Query: 113 HGSTFFNVLPSSLTSKHYGESE-KLVRALFETARARAPAVIFIDEVDAFC----SGSREH 167
F + ++ + ++ +F+ A + + +D+++ G R
Sbjct: 88 SNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRF- 146
Query: 168 EATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RFEKRI------SP 219
+ V LL + + +L++ T+ L ++ F I +
Sbjct: 147 --SNLVLQALLVLLK--KAPPQGRKLLIIGTTSRKDVLQ-EMEMLNAFSTTIHVPNIATG 201
Query: 220 IQIIGLCLGEIRKDPNVDVATLSKQLIGYSGS-DIRDLCQEI 260
Q++ L + + + T+++Q+ G I+ L I
Sbjct: 202 EQLLEA-LELLGNFKDKERTTIAQQVKGKKVWIGIKKLLMLI 242
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 124 bits (313), Expect = 5e-32
Identities = 86/236 (36%), Positives = 120/236 (50%), Gaps = 30/236 (12%)
Query: 53 VGWDDIAGLDNVKQIFKET---LLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAV 109
V + D+AG + K+ KE L P ++ I P +G+LL GPPG GKT LA+AV
Sbjct: 28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARI--P-KGVLLVGPPGVGKTHLARAV 84
Query: 110 ASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDA--------FC 161
A + F S G VR LFETA+ AP ++FIDE+DA
Sbjct: 85 AGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVG 144
Query: 162 SGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RFEKRI-- 217
G+ E E T +LL MDG D ++V+AATN P LD AL R RF+++I
Sbjct: 145 GGNDEREQTLN---QLLVEMDGFE---KDTAIVVMAATNRPDILDPALLRPGRFDRQIAI 198
Query: 218 -SP-----IQIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAARE 267
+P QI+ + +VD+A L+K+ G+ G+D+ +L E L+AARE
Sbjct: 199 DAPDVKGREQILRIHARGKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAARE 254
>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 = 123 bits (312), Expect = 6e-32
Identities = 83/240 (34%), Positives = 121/240 (50%), Gaps = 30/240 (12%)
Query: 49 TDTGVGWDDIAGLDNVKQIFKET---LLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLL 105
+ V + D+ G + + KE L P ++ + P +GILL GPPGTGKTLL
Sbjct: 9 GNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGARM--P-KGILLVGPPGTGKTLL 65
Query: 106 AKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDA------ 159
A+AVA + FF++ S G VR LF A+A AP ++FIDE+DA
Sbjct: 66 ARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRHRG 125
Query: 160 --FCSGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR--RFEK 215
G E E T +LL MDG +G++V+AATN P LD AL R RF+K
Sbjct: 126 AGLGGGHDEREQTLN---QLLVEMDGFD---SKEGIIVMAATNRPDILDPALLRPGRFDK 179
Query: 216 RI---SP-----IQIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAARE 267
+I P +I+ + +V++ ++K+ G+ G+D+ +L E L+AARE
Sbjct: 180 KIVVDPPDMLGRKKILEIHTRNKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAARE 239
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 76.7 bits (188), Expect = 4e-16
Identities = 45/251 (17%), Positives = 79/251 (31%), Gaps = 41/251 (16%)
Query: 55 WDDIAGLDNVKQIFKE---TLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVAS 111
++ GL VK +E LL+ + +L P + G PGTGKT +A +A
Sbjct: 30 DRELIGLKPVKDRIRETAALLLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAG 89
Query: 112 QH-------GSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDAFCSGS 164
+V L ++ G + + + + A V+FIDE
Sbjct: 90 LLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAM---GGVLFIDEAYYLYRPD 146
Query: 165 REHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDE------ALKRRFEKRIS 218
E + + LL M+ ++ LV+ + ++ + R I
Sbjct: 147 NERDYGQEAIEILLQVME------NNRDDLVVILAGYADRMENFFQSNPGFRSRIAHHIE 200
Query: 219 P--------IQIIGLCLGEIRKDPNVDVATLSKQLIGYS--------GSDIRDLCQEIIL 262
+I G L + + T + IG IR+ L
Sbjct: 201 FPDYSDEELFEIAGHMLDDQNYQMTPEAETALRAYIGLRRNQPHFANARSIRNALDRARL 260
Query: 263 IAAREVIQNAG 273
A + +
Sbjct: 261 RQANRLFTASS 271
>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 = 2e-12
Identities = 50/304 (16%), Positives = 84/304 (27%), Gaps = 79/304 (25%)
Query: 61 LDNVKQIF-KETLLLPKLMPQLFKGI--LRPWRGILLFGPPGTGKTLLAKAVASQHG--S 115
L N Q+F K + + +L + + LRP + +L+ G G+GKT +A V +
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQC 178
Query: 116 TF-FNVLPSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDAFCSGS-REHEATRRV 173
F + L K+ E ++ L + P + D + R H +
Sbjct: 179 KMDFKIF--WLNLKNCNSPETVLEMLQKLLYQIDPN--WTSRSDHSSNIKLRIHSIQAEL 234
Query: 174 RCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKRRFEKRISPIQIIGLC--LGEIR 231
R LL +LVL + + F C L
Sbjct: 235 R-RLLKSKPYE------NCLLVLLNVQNAKAWNA-----FNLS---------CKIL---- 269
Query: 232 KDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAAREVIQNAGFTGVNSKPPDGR----NN 287
+ T KQ+ + + I L T P + +
Sbjct: 270 ------LTTRFKQVTDFLSAATT---THISLDHHSM-----TLT-----PDEVKSLLLKY 310
Query: 288 IGAKGDD---SKCQVAPL-----------GSDRI----VLNRSHFERAKEKCRKSVDGAL 329
+ + D P G +N E ++ A
Sbjct: 311 LDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAE 370
Query: 330 IRKY 333
RK
Sbjct: 371 YRKM 374
Score = 33.7 bits (76), Expect = 0.10
Identities = 33/241 (13%), Positives = 64/241 (26%), Gaps = 82/241 (34%)
Query: 150 AVIFIDEVDAFCSGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEAL 209
+++ +E+D T R+ LLS K V + N+ + L +
Sbjct: 44 SILSKEEIDHIIMSKDAVSGTLRLFWTLLSK----QEEMVQKFVEEVLRINYKF-LMSPI 98
Query: 210 K------------------------RRFEK----RISPIQIIGLCLGEIRKDPNVDVATL 241
K + F K R+ P + L E+R NV +
Sbjct: 99 KTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLID-- 156
Query: 242 SKQLIGYSGSDIRDLCQEIILIAAREVIQNAGFT-----GV------NSKPPDGR----N 286
G G + + +V + + N P+
Sbjct: 157 -----GVLG------SGKTWVAL--DVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ 203
Query: 287 NIGAKGDDSKCQVAPLGSDRIVLNRSHFERAKEKCRKSVDGALI--RKYKR--------W 336
+ + D + SD + + + R+ L+ + Y+
Sbjct: 204 KLLYQIDPNWTS----RSDHSSNIKLRIHSIQAELRR-----LLKSKPYENCLLVLLNVQ 254
Query: 337 N 337
N
Sbjct: 255 N 255
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 54.9 bits (133), Expect = 1e-08
Identities = 29/81 (35%), Positives = 42/81 (51%), Gaps = 19/81 (23%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPA- 150
++L+GPPGTGKT LA+ +A + + S++TS G E +R E AR A
Sbjct: 53 MILWGPPGTGKTTLAEVIARYANADVERI--SAVTS---GVKE--IREAIERARQNRNAG 105
Query: 151 ---VIFIDEV--------DAF 160
++F+DEV DAF
Sbjct: 106 RRTILFVDEVHRFNKSQQDAF 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 = 53.0 bits (127), Expect = 6e-08
Identities = 42/225 (18%), Positives = 60/225 (26%), Gaps = 43/225 (19%)
Query: 56 DDIAGLDNVKQIFKETL-----LLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVA 110
+ G K L K +R +L+GPPG GKT A VA
Sbjct: 39 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVA 98
Query: 111 SQHGSTF--FN-------------VLPSSLTSKHYGESEKLVRALFETARARAPAVIFID 155
+ G N V + G + A + VI +D
Sbjct: 99 QELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNGK---HFVIIMD 155
Query: 156 EVDAFCSGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR---- 211
EVD G R ++ + L+L R
Sbjct: 156 EVDGMSGGDR--GGVGQLA-QFCRKT---------STPLILICNERNLPKMRPFDRVCLD 203
Query: 212 -RFEKRISPIQIIGLCLGEIRKDPNVDVATLS-KQLIGYSGSDIR 254
+F +R I L I + +LI + DIR
Sbjct: 204 IQF-RRPDANSIKSR-LMTIAIREKFKLDPNVIDRLIQTTRGDIR 246
>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 = 52.7 bits (126), Expect = 7e-08
Identities = 28/111 (25%), Positives = 45/111 (40%), Gaps = 17/111 (15%)
Query: 55 WDDIAGLDNVK---QIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVAS 111
+ G +N + + E + K+ R +LL GPPGTGKT LA A+A
Sbjct: 36 ASGLVGQENAREACGVIVELIKSKKMAG----------RAVLLAGPPGTGKTALALAIAQ 85
Query: 112 QHGSTF-FNVLPSSLTSKHYGESEKLVRALFETA---RARAPAVIFIDEVD 158
+ GS F + S + +++ F A R + ++ EV
Sbjct: 86 ELGSKVPFCPMVGSEVYSTEIKKTEVLMENFRRAIGLRIKETKEVYEGEVT 136
>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 = 21/81 (25%), Positives = 31/81 (38%), Gaps = 7/81 (8%)
Query: 91 GILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHY---GESEKLVRALFETARAR 147
IL+ GP G GKT +A+ +A + F V + T Y + A
Sbjct: 52 NILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAI 111
Query: 148 APA----VIFIDEVDAFCSGS 164
++FIDE+D C
Sbjct: 112 DAVEQNGIVFIDEIDKICKKG 132
>2chg_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATPase, ATP-binding,
nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus
fulgidus}
Length = 226
Score = 43.4 bits (103), Expect = 3e-05
Identities = 21/57 (36%), Positives = 26/57 (45%), Gaps = 12/57 (21%)
Query: 56 DDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQ 112
D++ G D V Q K + K +P L L GPPGTGKT A A+A
Sbjct: 17 DEVVGQDEVIQRLKG-YVERKNIPHL-----------LFSGPPGTGKTATAIALARD 61
>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 = 44.7 bits (105), Expect = 4e-05
Identities = 56/335 (16%), Positives = 97/335 (28%), Gaps = 124/335 (37%)
Query: 48 QTDTGVGWDDIAGL-----DNVKQIFKE-TLLLPKLMPQ------LF-KGI-LRPW---- 89
Q +T ++++ L V + K L +L+ +F +G+ + W
Sbjct: 163 QGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENP 222
Query: 90 -----RGILLFGP---PGTGKTLLA--KAVASQHGSTFFNVLP--SSLTSKHYGESEKLV 137
+ LL P P G LA A G T + T G S+ LV
Sbjct: 223 SNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT----GHSQGLV 278
Query: 138 RAL----------FETARARAPAVIFIDEVDAFCSGSREHEATRRV-------------- 173
A+ F + +A V+F G R +EA
Sbjct: 279 TAVAIAETDSWESFFVSVRKAITVLFF-------IGVRCYEAYPNTSLPPSILEDSLENN 331
Query: 174 --------------RCELLSHMDGVGTGSGDKGVLVLAATN---------HPWDLDEALK 210
+ ++ +++ + + ++ N P L L
Sbjct: 332 EGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSL-YGLN 390
Query: 211 RRFEK----------RI--S-----------PI------QIIGLCLGEIRKD-PNVDVAT 240
K RI S P+ ++ I KD +V+
Sbjct: 391 LTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSF 450
Query: 241 LSKQL-I----GYSGSDIRDLCQEIILIAAREVIQ 270
+K + I + GSD+R L I +I+
Sbjct: 451 NAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIR 485
Score = 31.6 bits (71), Expect = 0.45
Identities = 17/97 (17%), Positives = 31/97 (31%), Gaps = 30/97 (30%)
Query: 49 TDTGVGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRG--------ILLFGP--- 97
T G D+ L + +++ + + ++ W IL FGP
Sbjct: 462 TFDG---SDLRVLS--------GSISERIVDCIIRLPVK-WETTTQFKATHILDFGPGGA 509
Query: 98 PGTGKTLLAKAVASQHGSTFFNVLPSSLTSKH---YG 131
G G L + G+ ++ +L YG
Sbjct: 510 SGLGV-LTHRNKD---GTGVRVIVAGTLDINPDDDYG 542
>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 = 43.5 bits (103), Expect = 6e-05
Identities = 21/57 (36%), Positives = 26/57 (45%), Gaps = 12/57 (21%)
Query: 56 DDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQ 112
D++ G D V Q K + K +P L L GPPGTGKT A A+A
Sbjct: 17 DEVVGQDEVIQRLKG-YVERKNIPHL-----------LFSGPPGTGKTATAIALARD 61
>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 = 42.4 bits (100), Expect = 1e-04
Identities = 19/57 (33%), Positives = 26/57 (45%), Gaps = 12/57 (21%)
Query: 56 DDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQ 112
DDI G +++ + K + MP L L GPPG GKT A A+A +
Sbjct: 25 DDIVGQEHIVKRLKH-YVKTGSMPHL-----------LFAGPPGVGKTTAALALARE 69
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 42.0 bits (99), Expect = 2e-04
Identities = 15/75 (20%), Positives = 28/75 (37%), Gaps = 9/75 (12%)
Query: 92 ILLFGPPGTGKTLLAKAVASQ-HGSTFFNV------LPSSLTSKHYGESEKLVRALFETA 144
+ L GPPG K+L+A+ + + F P + ++ K
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQALKDEGRYERLT 103
Query: 145 RARAP--AVIFIDEV 157
P ++F+DE+
Sbjct: 104 SGYLPEAEIVFLDEI 118
>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 = 38.3 bits (90), Expect = 3e-04
Identities = 7/38 (18%), Positives = 18/38 (47%)
Query: 230 IRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAARE 267
+ + + +S+ +G+++R +C E + A R
Sbjct: 17 MSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRA 54
>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 = 37.7 bits (88), Expect = 4e-04
Identities = 13/47 (27%), Positives = 21/47 (44%)
Query: 221 QIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAARE 267
I G ++ P D+ +L + SG+ I + QE L A R+
Sbjct: 5 LIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRK 51
>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 = 37.7 bits (88), Expect = 4e-04
Identities = 13/47 (27%), Positives = 21/47 (44%)
Query: 221 QIIGLCLGEIRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAARE 267
I ++ VD+ + SG+DI +CQE ++A RE
Sbjct: 8 LIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVRE 54
>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 = 39.7 bits (92), Expect = 5e-04
Identities = 31/177 (17%), Positives = 58/177 (32%), Gaps = 24/177 (13%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAV 151
IL+ G PGTGKT +A+ +A++ + + H+ +
Sbjct: 13 ILITGTPGTGKTSMAEMIAAELDGFQHLEVGKLVKENHFYTEYDTELDTH---------I 63
Query: 152 IFIDEVDAFCSGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR 211
I + D E R + H + V+VL L E L +
Sbjct: 64 IEEKDEDRLLD-FMEPIMVSRGNHVVDYHSSELFPERWFHMVVVLHT--STEVLFERLTK 120
Query: 212 R--FEKRISP---IQIIGLCLGEIRK--DPNVDVATLSKQLIGYSGSDIRDLCQEII 261
R E + + +I +C E R + ++ + + + + +EI
Sbjct: 121 RQYSEAKRAENMEAEIQCICEEEARDAYEDDIVLVREND-----TLEQMAATVEEIR 172
>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 = 39.7 bits (92), Expect = 5e-04
Identities = 22/149 (14%), Positives = 38/149 (25%), Gaps = 31/149 (20%)
Query: 92 ILLFGPPGTGKTLLA----------KAVASQHG-------------STFFNVLPSSLTSK 128
L+ G PG+GKTL K + T+ L
Sbjct: 8 CLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTNIKGLKIPHTYIETDAKKLPKS 67
Query: 129 HYGESEKLVRALFETARARAPAVIFIDEVDAFCSGSREHEATRRVRCELLSHMDGVGTGS 188
+ + +++ +DE L +H
Sbjct: 68 TDEQLSAHDMYEWIKKPENIGSIVIVDEAQDVWPARSAGSKIPENVQWLNTH-------- 119
Query: 189 GDKGVLVLAATNHPWDLDEALKRRFEKRI 217
+G+ + T P LD+ L+ K
Sbjct: 120 RHQGIDIFVLTQGPKLLDQNLRTLVRKHY 148
>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 384
Score = 40.5 bits (94), Expect = 5e-04
Identities = 31/237 (13%), Positives = 65/237 (27%), Gaps = 64/237 (27%)
Query: 80 QLFKGILRPWRG--ILLFGPPGTGKTLLAKAVASQ-----------------------HG 114
+ ++ L G GTGKT ++K + ++ G
Sbjct: 34 IAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDVKQAYVNCREVG 93
Query: 115 STFFNVL------PSSLTSKHYGESEKLVRALFETARARAPAVIFIDEVDAFCSGSREHE 168
T VL + + +G + + A+I++DEVD
Sbjct: 94 GTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAIIYLDEVDTLVKRRGGDI 153
Query: 169 ATRRVRCELLSHMDGVGTGSGDKGVLVLAATNHPW---DLDEALKRRFEKRI-----SPI 220
V +LL + V+ +N ++ + +
Sbjct: 154 ----VLYQLLRSDANIS---------VIMISNDINVRDYMEPRVLSSLGPSVIFKPYDAE 200
Query: 221 QIIGLCLGEIRKDPNVDVATLSKQLIGY-------SGSDIR---DLCQEIILIAARE 267
Q+ + + + T +++ Y D R +L +A+
Sbjct: 201 QLKFIL--SKYAEYGLIKGTYDDEILSYIAAISAKEHGDARKAVNLLFRAAQLASGG 255
>3ec2_A DNA replication protein DNAC; helicase loader, replication
initiation factor, ATP-binding, nucleotide-binding; HET:
DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*
Length = 180
Score = 39.3 bits (92), Expect = 6e-04
Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 15/77 (19%)
Query: 90 RGILLFGPPGTGKTLLA----KAVASQHG--STFFNV--LPSSL-TSKHYGESEKLVRAL 140
+G+ G PG GKT LA KA+ + G FF+ L L G+ K ++ +
Sbjct: 39 KGLTFVGSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRLKHLMDEGKDTKFLKTV 98
Query: 141 FETARARAPAVIFIDEV 157
+P ++ +D++
Sbjct: 99 -----LNSPVLV-LDDL 109
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 36.7 bits (86), Expect = 8e-04
Identities = 8/38 (21%), Positives = 22/38 (57%)
Query: 230 IRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAARE 267
+ +++ +++ + G SG++++ +C E + A RE
Sbjct: 27 MNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRE 64
>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 = 40/232 (17%), Positives = 67/232 (28%), Gaps = 54/232 (23%)
Query: 80 QLFKGILRPWRG--ILLFGPPGTGKTLLAKAVASQ----HGSTF---------------- 117
+ + R + I ++G GTGKT + K V S+ F
Sbjct: 34 SILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRV 93
Query: 118 FNVLPSSLT----SKHYGESEKLVRALFETARARAPAVIFIDEVDAFCSGSREHEATRRV 173
L SL +E R + + VI +DE+DAF +
Sbjct: 94 LADLLESLDVKVPFTGLSIAELYRRLVKAVRDYGSQVVIVLDEIDAFVKKYND------- 146
Query: 174 RCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKRRFEKRISP-------------I 220
++L + + + + + TN + L R + +S
Sbjct: 147 --DILYKLSRINSEVNKSKISFIGITNDV-KFVDLLDPRVKSSLSEEEIIFPPYNAEELE 203
Query: 221 QIIGLCLGEIRKDPNVDVATLSK--QLIGYSGSDIR---DLCQEIILIAARE 267
I+ K + + L D R DL + IA R
Sbjct: 204 DILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAERM 255
>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 = 38.7 bits (91), Expect = 0.002
Identities = 26/80 (32%), Positives = 44/80 (55%), Gaps = 20/80 (25%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNVLP------SSLTSKHY-GES-----EKLVRA 139
ILL GP G+GKTLLA+ +A +V P ++LT Y GE +KL++
Sbjct: 54 ILLIGPTGSGKTLLAETLAR-----LLDV-PFTMADATTLTEAGYVGEDVENIIQKLLQK 107
Query: 140 L-FETARARAPAVIFIDEVD 158
++ +A+ +++ID++D
Sbjct: 108 CDYDVQKAQR-GIVYIDQID 126
>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 = 38.8 bits (91), Expect = 0.002
Identities = 27/80 (33%), Positives = 43/80 (53%), Gaps = 20/80 (25%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNVLP------SSLTSKHY-GES-----EKLVRA 139
ILL GP G+GKTL+A+ +A ++ P +SLT Y GE +L++A
Sbjct: 75 ILLIGPTGSGKTLMAQTLAK-----HLDI-PIAISDATSLTEAGYVGEDVENILTRLLQA 128
Query: 140 L-FETARARAPAVIFIDEVD 158
+ +A+ ++FIDE+D
Sbjct: 129 SDWNVQKAQK-GIVFIDEID 147
>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 = 37.7 bits (87), Expect = 0.002
Identities = 16/29 (55%), Positives = 19/29 (65%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNV 120
ILL G PG GKT L K +AS+ G + NV
Sbjct: 14 ILLTGTPGVGKTTLGKELASKSGLKYINV 42
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 38.3 bits (89), Expect = 0.002
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 90 RGILLFGPPGTGKTLLAKAVA 110
+G+ L+G G GK+ L A+A
Sbjct: 153 KGLYLYGDMGIGKSYLLAAMA 173
>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 = 35.5 bits (83), Expect = 0.002
Identities = 8/38 (21%), Positives = 22/38 (57%)
Query: 230 IRKDPNVDVATLSKQLIGYSGSDIRDLCQEIILIAARE 267
+ +++ +++ + G SG++++ +C E + A RE
Sbjct: 19 MNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRE 56
>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian
virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A
2h1l_A
Length = 377
Score = 38.1 bits (88), Expect = 0.003
Identities = 25/131 (19%), Positives = 39/131 (29%), Gaps = 14/131 (10%)
Query: 42 VEKDIVQTDTGVGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPW-------RGILL 94
+ + D G A ++ L M + L+ R L
Sbjct: 115 FNDLLDRMDIMFGSTGSADIEEWMAGVAWLHCLLPKMDSVVYDFLKCMVYNIPKKRYWLF 174
Query: 95 FGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHY-GESEKLVRALFETARARA----- 148
GP +GKT LA A+ G NV G + +FE +
Sbjct: 175 KGPIDSGKTTLAAALLELCGGKALNVNLPLDRLNFELGVAIDQFLVVFEDVKGTGGESRD 234
Query: 149 -PAVIFIDEVD 158
P+ I+ +D
Sbjct: 235 LPSGQGINNLD 245
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 37.4 bits (87), Expect = 0.003
Identities = 10/21 (47%), Positives = 13/21 (61%)
Query: 90 RGILLFGPPGTGKTLLAKAVA 110
+G+ L G G GKT L A+A
Sbjct: 55 KGLYLHGSFGVGKTYLLAAIA 75
>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 = 37.1 bits (85), Expect = 0.003
Identities = 25/109 (22%), Positives = 36/109 (33%), Gaps = 25/109 (22%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGS--------TFFNVLPSSLTSKHYGES---------- 133
I+L G GK+ + + + S + +P + S G
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAMPLKMQSAEGGIEFDADGGVSIG 65
Query: 134 ---EKLVRALFETAR--ARAPAVIFIDEVDAFCSGSREHEATRRVRCEL 177
L A E ARA A I ID+V F G+ E R +L
Sbjct: 66 PEFRALEGAWAEGVVAMARAGARIIIDDV--FLGGAAAQERWRSFVGDL 112
>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 = 37.9 bits (87), Expect = 0.004
Identities = 18/154 (11%), Positives = 36/154 (23%), Gaps = 33/154 (21%)
Query: 92 ILLFGPPGTGKTLLAKAVASQ---------------HGSTFFNVL-------PSSLTSKH 129
L G PGTGKT+ + + F ++ +
Sbjct: 47 ATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNIPFPRRG 106
Query: 130 YGESEKLVRALFETARARAPAVIFIDEVDAFCSGSREHEATRRVRCELLSHMDGVGTGSG 189
E L + + +D+ + +
Sbjct: 107 LSRDEFLALLVEHLRERDLYMFLVLDDAFNLAP---------DILSTFIRLGQEADKLGA 157
Query: 190 DKGVLVLAATNHPW--DLDEALKRRFEKRISPIQ 221
+ LV+ N +LD + + K +
Sbjct: 158 FRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFS 191
>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase,
nucleotide-binding, Pro serine protease, stress
response; HET: ADP; 3.40A {Bacillus subtilis} PDB:
1x37_A
Length = 543
Score = 37.9 bits (89), Expect = 0.004
Identities = 26/52 (50%), Positives = 31/52 (59%), Gaps = 8/52 (15%)
Query: 60 GLDNVKQIFKETLLLPKLMPQLFKGILRPWRGIL-LFGPPGTGKTLLAKAVA 110
GL+ VK+ E L + KL L KG P IL L GPPG GKT LAK++A
Sbjct: 85 GLEKVKERILEYLAVQKLTKSL-KG---P---ILCLAGPPGVGKTSLAKSIA 129
>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop,
rossman fold, AAA+, photosynthesis, metal transport;
2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB:
2x31_G
Length = 350
Score = 37.1 bits (86), Expect = 0.007
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 91 GILLFGPPGTGKTLLAKAVAS 111
G+L+FG GTGK+ +A+A+
Sbjct: 47 GVLVFGDRGTGKSTAVRALAA 67
>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural
genomics, PSI, protein struc initiative; 3.20A
{Agrobacterium tumefaciens str} SCOP: c.37.1.25
Length = 191
Score = 35.8 bits (82), Expect = 0.009
Identities = 11/29 (37%), Positives = 19/29 (65%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNV 120
+LL G PG+GK+ +A+A+A+ G +
Sbjct: 12 LLLSGHPGSGKSTIAEALANLPGVPKVHF 40
>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 = 0.009
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 12/57 (21%)
Query: 56 DDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQ 112
D++ G + V ++ + +P L L +GPPGTGKT A+A +
Sbjct: 25 DEVYGQNEVITTVRK-FVDEGKLPHL-----------LFYGPPGTGKTSTIVALARE 69
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 36.0 bits (84), Expect = 0.014
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTF 117
IL GP G GKT LA ++ + +
Sbjct: 58 ILFSGPAGLGKTTLANIISYEMSANI 83
>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 = 36.0 bits (84), Expect = 0.015
Identities = 13/26 (50%), Positives = 17/26 (65%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTF 117
+LL GPPG GKT LA +AS+ +
Sbjct: 54 VLLAGPPGLGKTTLAHIIASELQTNI 79
>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA
translocation, nucleotide-binding, DNA-binding; 3.00A
{Bovine papillomavirus type 1} PDB: 2gxa_A*
Length = 305
Score = 35.6 bits (82), Expect = 0.015
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 7/40 (17%)
Query: 79 PQLFKGILRPW-------RGILLFGPPGTGKTLLAKAVAS 111
F L+ W + GPP TGK++L ++
Sbjct: 109 LITFINALKLWLKGIPKKNCLAFIGPPNTGKSMLCNSLIH 148
>1sxj_B Activator 1 37 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 323
Score = 35.8 bits (83), Expect = 0.016
Identities = 12/57 (21%), Positives = 20/57 (35%), Gaps = 12/57 (21%)
Query: 56 DDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQ 112
DI G ++ + MP + ++ G PG GKT +A +
Sbjct: 21 SDIVGNKETIDRLQQ-IAKDGNMPHM-----------IISGMPGIGKTTSVHCLAHE 65
>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 = 35.6 bits (83), Expect = 0.017
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTF 117
+LLFGPPG GKT LA +A + G
Sbjct: 41 LLLFGPPGLGKTTLAHVIAHELGVNL 66
>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 = 0.022
Identities = 8/27 (29%), Positives = 16/27 (59%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFF 118
++ GP G GK+ K +A+Q ++ +
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQLDNSAY 31
>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 = 34.5 bits (79), Expect = 0.026
Identities = 15/63 (23%), Positives = 24/63 (38%), Gaps = 6/63 (9%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGS------TFFNVLPSSLTSKHYGESEKLVRALFETAR 145
I++ G P TGKT L++A+A+ F V+ L S ++
Sbjct: 8 IIVTGHPATGKTTLSQALATGLRLPLLSKDAFKEVMFDGLGWSDREWSRRVGATAIMMLY 67
Query: 146 ARA 148
A
Sbjct: 68 HTA 70
>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 = 34.9 bits (80), Expect = 0.031
Identities = 30/243 (12%), Positives = 70/243 (28%), Gaps = 69/243 (28%)
Query: 56 DDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQ-HG 114
+ ++ + + K P+ +P L LL+GP GTGK A+ G
Sbjct: 14 NALSHNEELTNFLKSLSDQPRDLPHL-----------LLYGPNGTGKKTRCMALLESIFG 62
Query: 115 STFFNVLPSSLTSKHYGESEKLVRALF-------------------------ETARARAP 149
+ + + + + E A+
Sbjct: 63 PGVYRLKIDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV 122
Query: 150 A-------------VIFIDEVDAFCSGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVL 196
+ I+E ++ ++ A RR + ++ L++
Sbjct: 123 DFQDSKDGLAHRYKCVIINEANSLTKDAQ--AALRRTMEKYSKNI-----------RLIM 169
Query: 197 AATNHPWDLDEALKRRFEK-RISPI--QIIGLCLGEIRKDPNVDVAT--LSKQLIGYSGS 251
+ + +K + R I L ++ + + + T + K++ S
Sbjct: 170 -VCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNG 228
Query: 252 DIR 254
++R
Sbjct: 229 NLR 231
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 35.1 bits (81), Expect = 0.031
Identities = 16/89 (17%), Positives = 30/89 (33%), Gaps = 1/89 (1%)
Query: 90 RGILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAP 149
R +LL G PGTGK++L +A+A + + + ++ R
Sbjct: 61 RHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPE-DENMPRIKTVPACQGRRIVE 119
Query: 150 AVIFIDEVDAFCSGSREHEATRRVRCELL 178
+ S + + +LL
Sbjct: 120 KYREKAKSQESVKSSNMRLKSTVLVPKLL 148
>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 = 34.5 bits (78), Expect = 0.038
Identities = 10/160 (6%), Positives = 37/160 (23%), Gaps = 41/160 (25%)
Query: 92 ILLFGPPGTGKTLLAKAVASQ------------------------HGSTFFNVLPSSLTS 127
+ + K L V + + + +++
Sbjct: 48 FYITNADDSTKFQLVNDVMDELITSSARKELPIFDYIHIDALELAGMDALYEKIWFAISK 107
Query: 128 KHY--GESEKLVRALFETARA--RAPAVIFIDEVDAFCSGSREHEATRRVRCELLSHMDG 183
++ S + + + +I I + + ++ +
Sbjct: 108 ENLCGDISLEALNFYITNVPKAKKRKTLILIQNPENL--------LSEKILQYFEKWIS- 158
Query: 184 VGTGSGDKGVLVLAATNHPWDLDEALKRRFEKRISPIQII 223
S + + ++ H + E + + +I
Sbjct: 159 ----SKNSKLSIICVGGHNVTIREQINIMPSLKAHFTEIK 194
>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 = 33.5 bits (77), Expect = 0.040
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFF 118
I+L GP K+ +A ++ +
Sbjct: 4 IILEGPDCCFKSTVAAKLSKELKYPII 30
>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 = 34.1 bits (78), Expect = 0.043
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 8/41 (19%)
Query: 79 PQLFKGILRPW--------RGILLFGPPGTGKTLLAKAVAS 111
PQ + W I LFGP TGKT +A+A+A
Sbjct: 86 PQYAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAH 126
>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 353
Score = 34.0 bits (78), Expect = 0.062
Identities = 15/57 (26%), Positives = 25/57 (43%), Gaps = 12/57 (21%)
Query: 56 DDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQ 112
D++ D+ + K+ L +P + L +GPPGTGKT A+ +
Sbjct: 37 DEVTAQDHAVTVLKK-TLKSANLPHM-----------LFYGPPGTGKTSTILALTKE 81
>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 = 33.7 bits (77), Expect = 0.071
Identities = 17/75 (22%), Positives = 29/75 (38%), Gaps = 9/75 (12%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFN--VLPSSLTSKHYG-----ESEKLVRALFETA 144
I+L G PG GK+ +K +A + VL S L + + E + ++ +
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPVWKEKYEEFIKKSTYRLI 66
Query: 145 RARAPAVIFIDEVDA 159
+ I VD
Sbjct: 67 DSALKNYWVI--VDD 79
>2r44_A Uncharacterized protein; putative ATPase, structural genomics,
joint center for struc genomics, JCSG; HET: MSE PG4;
2.00A {Cytophaga hutchinsonii atcc 33406}
Length = 331
Score = 33.7 bits (78), Expect = 0.080
Identities = 11/26 (42%), Positives = 12/26 (46%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTF 117
ILL G PG KTL +A F
Sbjct: 49 ILLEGVPGLAKTLSVNTLAKTMDLDF 74
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 34.0 bits (78), Expect = 0.081
Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 8/76 (10%)
Query: 85 ILRPWRG-ILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGES---EKLVRAL 140
L+ +G ++L G TGKT+L + VA +G +H S L +A+
Sbjct: 1604 ALKQVQGHMMLIGASRTGKTILTRFVAWLNGLKIVQP----KIHRHSNLSDFDMILKKAI 1659
Query: 141 FETARARAPAVIFIDE 156
+ + + + IDE
Sbjct: 1660 SDCSLKESRTCLIIDE 1675
Score = 31.7 bits (72), Expect = 0.38
Identities = 15/48 (31%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 81 LFKGILRPWRGILLFGPPGTGKTLLAKAVASQHGSTFFNVLP-SSLTS 127
+F +L RGI+L GPPG+GKT++ + S T+
Sbjct: 1259 IFYDLLNSKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTT 1306
Score = 28.7 bits (64), Expect = 3.7
Identities = 14/49 (28%), Positives = 21/49 (42%), Gaps = 7/49 (14%)
Query: 91 GILLFGPPGTGKT----LLAKAVASQHG-STFFNVL-PSSLTSKH-YGE 132
++L G G GKT + A+A G + V+ LT + YG
Sbjct: 925 ALILVGKAGCGKTATWKTVIDAMAIFDGHANVVYVIDTKVLTKESLYGS 973
Score = 28.3 bits (63), Expect = 5.4
Identities = 8/22 (36%), Positives = 10/22 (45%), Gaps = 4/22 (18%)
Query: 95 FGPPGTGKT----LLAKAVASQ 112
FGP GTGKT + +
Sbjct: 651 FGPAGTGKTETVKAFGQNLGRV 672
>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 = 33.3 bits (76), Expect = 0.12
Identities = 14/48 (29%), Positives = 21/48 (43%), Gaps = 1/48 (2%)
Query: 81 LFKGILRPWRGILLFGPPGTGKTLLAKAVASQHGSTFFNVLP-SSLTS 127
+ L R ++L GPPG+GKT+ + L SS T+
Sbjct: 1296 VLHAWLSEHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATT 1343
Score = 31.4 bits (71), Expect = 0.57
Identities = 14/51 (27%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 85 ILRPWRG-ILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGESE 134
+ R +G LL G G GK++L++ VA +G + + + + +Y S+
Sbjct: 1641 VFRQPQGHALLIGVSGGGKSVLSRFVAWMNGLSIYTIKV----NNNYKSSD 1687
>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 = 33.0 bits (75), Expect = 0.13
Identities = 24/169 (14%), Positives = 41/169 (24%), Gaps = 57/169 (33%)
Query: 58 IAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLA----------- 106
I G D++ G+ R L+ G GTGKTL +
Sbjct: 25 IEGFDDI----------------SHGGLPIG-RSTLVSGTSGTGKTLFSIQFLYNGIIEF 67
Query: 107 ----------------KAVASQHGSTFFNVL-------------PSSLTSKHYGESEKLV 137
A G ++ P + L+
Sbjct: 68 DEPGVFVTFEETPQDIIKNARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALI 127
Query: 138 RALFETARARAPAVIFIDEVDAFCSGSREHEATRRVRCELLSHMDGVGT 186
+ + + ID V + RR L++ + +G
Sbjct: 128 ERINYAIQKYRARRVSIDSVTSVFQQYDASSVVRRELFRLVARLKQIGA 176
Score = 31.0 bits (70), Expect = 0.64
Identities = 10/21 (47%), Positives = 10/21 (47%)
Query: 92 ILLFGPPGTGKTLLAKAVASQ 112
IL G GTGKTLL
Sbjct: 284 ILATGATGTGKTLLVSRFVEN 304
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure
initiati YORK structural genomics research consortium,
nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 32.4 bits (73), Expect = 0.14
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFN 119
I++ G G+GK+ + +A+A G F
Sbjct: 21 IVVMGVSGSGKSSVGEAIAEACGYPFIE 48
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 31.8 bits (73), Expect = 0.14
Identities = 25/128 (19%), Positives = 42/128 (32%), Gaps = 31/128 (24%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAPAV 151
I ++G G GK+ L +A +Q N Y ++ + T A
Sbjct: 39 IYVWGEEGAGKSHLLQAWVAQALEAGKNAA--------YIDAAS----MPLTDAAFEAEY 86
Query: 152 IFIDEVDAFCSGSREHEATR---RVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLD-- 206
+ +D+V+ + R R + KG L+L + P L
Sbjct: 87 LAVDQVEKL-GNEEQALLFSIFNRFR-------------NSGKGFLLLGSEYTPQQLVIR 132
Query: 207 EALKRRFE 214
E L+ R
Sbjct: 133 EDLRTRMA 140
>3pdi_A Nitrogenase MOFE cofactor biosynthesis protein NI; nitrogenase
cofactor maturation, NIFB, nifdk, NIFH; HET: CZL; 2.40A
{Azotobacter vinelandii}
Length = 483
Score = 32.5 bits (74), Expect = 0.20
Identities = 21/104 (20%), Positives = 38/104 (36%), Gaps = 19/104 (18%)
Query: 82 FKGILRPWRGI-----LLFGPPG-TGKTLLAKAVASQHGSTFFNVLPSSLTSKH--YGES 133
F G + ++ GP G + + S + + + LT G +
Sbjct: 47 FDGAQIALLPVADVAHIVHGPIACAGSSWDNRGTRSSGPDLYRIGMTTDLTENDVIMGRA 106
Query: 134 EK-LVRALFETARARAPAVIFI----------DEVDAFCSGSRE 166
EK L A+ + + +P +F+ D+VDA C + E
Sbjct: 107 EKRLFHAIRQAVESYSPPAVFVYNTCVPALIGDDVDAVCKAAAE 150
>2fna_A Conserved hypothetical protein; structural genomics, joint center
for structural genomics, J protein structure initiative,
PSI-2; HET: MSE ADP; 2.00A {Sulfolobus solfataricus}
SCOP: a.4.5.11 c.37.1.20
Length = 357
Score = 32.4 bits (73), Expect = 0.22
Identities = 15/113 (13%), Positives = 37/113 (32%), Gaps = 6/113 (5%)
Query: 90 RGILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETARARAP 149
L+ G TGK+ + K ++ + + ++Y + + L +
Sbjct: 31 PITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQKEINKLVK 90
Query: 150 AVIFIDEVDAFCSG------SREHEATRRVRCELLSHMDGVGTGSGDKGVLVL 196
+ + + G + R+ R + ++ S D ++VL
Sbjct: 91 RLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVL 143
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 31.8 bits (72), Expect = 0.25
Identities = 14/69 (20%), Positives = 23/69 (33%), Gaps = 22/69 (31%)
Query: 38 LTALVEKDIVQTDTGVGWDDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGP 97
+ + + + + +G I G D + +G +LL G
Sbjct: 1 MRIMAYQPVRRVKSG-----IPGFDEL-----------------IEGGFPEGTTVLLTGG 38
Query: 98 PGTGKTLLA 106
GTGKT A
Sbjct: 39 TGTGKTTFA 47
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 32.1 bits (73), Expect = 0.30
Identities = 12/56 (21%), Positives = 20/56 (35%), Gaps = 13/56 (23%)
Query: 58 IAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRG---ILLFGPPGTGKTLLAKAVA 110
+ G + V + L L QLF + + +LL G P +L +
Sbjct: 215 LPGAEEVG----KMLAL-----QLFSCVGKN-SERLHVLLAGYPVVCSEILHHVLD 260
>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 = 31.9 bits (72), Expect = 0.33
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 80 QLFKGILRPWRGILLFGPPGTGKTLLAKAV 109
+ K I + + GP GTG T L K +
Sbjct: 36 IVMKAIKEKKHHVTINGPAGTGATTLTKFI 65
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 31.7 bits (71), Expect = 0.33
Identities = 30/172 (17%), Positives = 57/172 (33%), Gaps = 37/172 (21%)
Query: 80 QLFKGILRPWRG--ILLFGPPGTGKTLLAKAVASQHGS---------TFFNVLPSSLTSK 128
++ LR + LL+G GTGKT +A+ V + + V +
Sbjct: 33 EVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRLEARASSLGVLVKPIYVNARHRETP 92
Query: 129 H------------------YGESEKLVRALFETARARAPAVIFIDEVDAFCSGSREHEAT 170
+ E R + +R R +I +DE+D
Sbjct: 93 YRVASAIAEAVGVRVPFTGLSVGEVYERLVKRLSRLRGIYIIVLDEIDFLP--------K 144
Query: 171 RRVRCELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKRRFEKRISPIQI 222
R +LL + + GD+ + L + E L+ R + + +++
Sbjct: 145 RPGGQDLLYRITRINQELGDRVWVSLVGITNSLGFVENLEPRVKSSLGEVEL 196
>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 = 31.2 bits (70), Expect = 0.36
Identities = 13/54 (24%), Positives = 23/54 (42%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFETAR 145
I + G+G ++ K +A + G F++ L S+ E+ R E A
Sbjct: 17 ITIEREYGSGGRIVGKKLAEELGIHFYDDDILKLASEKSAVGEQFFRLADEKAG 70
>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid
biosynthesis, P-loop kinase, metal- binding, shikimate
pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis}
SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A*
2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A*
1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A*
3baf_A*
Length = 184
Score = 31.0 bits (71), Expect = 0.38
Identities = 8/29 (27%), Positives = 14/29 (48%)
Query: 90 RGILLFGPPGTGKTLLAKAVASQHGSTFF 118
+L G PG+GK+ + + +A G
Sbjct: 3 PKAVLVGLPGSGKSTIGRRLAKALGVGLL 31
>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 = 31.2 bits (70), Expect = 0.43
Identities = 12/78 (15%), Positives = 26/78 (33%), Gaps = 17/78 (21%)
Query: 78 MPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQHGST-------FFNVLPSSLTSKHY 130
M ++ IL G PG+GK+ A+ +++ + + + Y
Sbjct: 1 MKKI----------ILTIGCPGSGKSTWAREFIAKNPGFYNINRDDYRQSIMAHEERDEY 50
Query: 131 GESEKLVRALFETARARA 148
++K + A
Sbjct: 51 KYTKKKEGIVTGMQFDTA 68
>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 = 31.2 bits (71), Expect = 0.45
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 91 GILLFGPPGTGKTLLAKAVA 110
+L+ PG G L A++
Sbjct: 26 ALLIQALPGMGDDALIYALS 45
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 30.6 bits (70), Expect = 0.48
Identities = 8/27 (29%), Positives = 11/27 (40%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFF 118
I L G G GKT + +A +
Sbjct: 8 IYLIGLMGAGKTSVGSQLAKLTKRILY 34
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 30.7 bits (70), Expect = 0.49
Identities = 9/15 (60%), Positives = 11/15 (73%)
Query: 92 ILLFGPPGTGKTLLA 106
I L G PGTGKT+ +
Sbjct: 26 IALTGEPGTGKTIFS 40
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 30.8 bits (70), Expect = 0.50
Identities = 15/49 (30%), Positives = 20/49 (40%), Gaps = 17/49 (34%)
Query: 58 IAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLA 106
I G+D + L GI +LL G PGTGKT+ +
Sbjct: 9 IPGVDEI----------------LHGGIPER-NVVLLSGGPGTGKTIFS 40
>3pdi_B Nitrogenase MOFE cofactor biosynthesis protein NI; nitrogenase
cofactor maturation, NIFB, nifdk, NIFH; HET: CZL; 2.40A
{Azotobacter vinelandii}
Length = 458
Score = 31.2 bits (71), Expect = 0.54
Identities = 16/87 (18%), Positives = 27/87 (31%), Gaps = 14/87 (16%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKH--YGESEKLVRALFETARARAP 149
L G G T AK +H + +++ G E +V AL + P
Sbjct: 36 PLFHGSQGC--TAFAKVFFVRHFREPVPLQTTAMDQVSSVMGADENVVEALKTICERQNP 93
Query: 150 AVIFI----------DEVDAFCSGSRE 166
+VI + ++ R
Sbjct: 94 SVIGLLTTGLSETQGCDLHTALHEFRT 120
>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 = 31.4 bits (72), Expect = 0.54
Identities = 14/25 (56%), Positives = 17/25 (68%), Gaps = 2/25 (8%)
Query: 87 RPWRGILLF-GPPGTGKTLLAKAVA 110
RP G +F GP G GKT LA+A+A
Sbjct: 519 RPI-GSFIFLGPTGVGKTELARALA 542
>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 = 30.4 bits (68), Expect = 0.60
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 92 ILLFGPPGTGKTLLAKAVASQ 112
I++ G PG GKT L K + +
Sbjct: 3 IIITGEPGVGKTTLVKKIVER 23
>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway,
P-loop protein, transferase; 1.8A {Erwinia chrysanthemi}
SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*
Length = 173
Score = 30.2 bits (69), Expect = 0.60
Identities = 8/27 (29%), Positives = 12/27 (44%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFF 118
I + G G G T + + +A G F
Sbjct: 5 IFMVGARGCGMTTVGRELARALGYEFV 31
>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 = 30.0 bits (67), Expect = 0.63
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTF 117
+L G G+GK+ +A VA Q + F
Sbjct: 11 YVLMGVSGSGKSAVASEVAHQLHAAF 36
>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI,
protein structure initiative; 2.05A {Escherichia coli}
SCOP: c.37.1.2
Length = 173
Score = 29.8 bits (68), Expect = 0.71
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 90 RGILLFGPPGTGKTLLAKAVASQHGSTFF 118
R I L GP G GK+ + + +A Q F+
Sbjct: 5 RNIFLVGPMGAGKSTIGRQLAQQLNMEFY 33
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 30.5 bits (68), Expect = 0.72
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 1/51 (1%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGESEKLVRALFE 142
LL G GK+ L +A ++ + H E+L++ L
Sbjct: 34 TLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITR-EELIKELQS 83
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 31.0 bits (70), Expect = 0.73
Identities = 20/84 (23%), Positives = 29/84 (34%), Gaps = 14/84 (16%)
Query: 146 ARAPAVIFIDEVDAFCSGSREHEATRRVR-----C-E------LLSHMDGVGTGSGDKGV 193
R V EV + S E C E +S+ +G G G
Sbjct: 817 ERVIVVTGFAEVGPWGSARTRWEMEAFGEFSLEGCVEMAWIMGFISYHNGNLKGRPYTG- 875
Query: 194 LVLAATNHPWDLDEALKRRFEKRI 217
V + T P D D+ +K ++E I
Sbjct: 876 WVDSKTKEPVD-DKDVKAKYETSI 898
>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 = 30.2 bits (68), Expect = 0.73
Identities = 8/40 (20%), Positives = 14/40 (35%), Gaps = 7/40 (17%)
Query: 79 PQLFKGILRPW-------RGILLFGPPGTGKTLLAKAVAS 111
F G L+ + ++ GP TGK+ +
Sbjct: 41 FITFLGALKSFLKGTPKKNCLVFCGPANTGKSYFGMSFIH 80
>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A
{Campylobacter jejuni} SCOP: c.37.1.2
Length = 175
Score = 29.8 bits (68), Expect = 0.88
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFF 118
I+ G G+GK+ LA+A+A F
Sbjct: 7 IVFIGFMGSGKSTLARALAKDLDLVFL 33
>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 = 29.5 bits (67), Expect = 0.94
Identities = 11/42 (26%), Positives = 14/42 (33%), Gaps = 1/42 (2%)
Query: 70 ETLLL-PKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVA 110
L K L K + L G G GKT L + +
Sbjct: 13 SMLRFGKKFAEILLKLHTEKAIMVYLNGDLGAGKTTLTRGML 54
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 30.3 bits (68), Expect = 1.00
Identities = 12/52 (23%), Positives = 20/52 (38%), Gaps = 10/52 (19%)
Query: 92 ILLFGPPGTGKTLLAKAVASQ---HGSTFFNVLPSSLTSKHYGESEKLVRAL 140
+ PG GK+ AK + + GS + P E +++ R L
Sbjct: 38 WTILAKPGAGKSFTAKMLLLREYMQGSRVIIIDPE-------REYKEMCRKL 82
>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 = 16/58 (27%), Positives = 24/58 (41%), Gaps = 13/58 (22%)
Query: 56 DDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGP-PGTGKTLLAKAVASQ 112
D+ K+ FK + +P + +L P PGTGKT +AKA+
Sbjct: 26 DECILPAFDKETFKS-ITSKGKIPHI-----------ILHSPSPGTGKTTVAKALCHD 71
>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 = 29.4 bits (67), Expect = 1.2
Identities = 7/27 (25%), Positives = 13/27 (48%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFF 118
++L G G+GK+ LA+ +
Sbjct: 10 LVLIGFMGSGKSSLAQELGLALKLEVL 36
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
Length = 758
Score = 30.3 bits (69), Expect = 1.2
Identities = 9/22 (40%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 91 GILLF-GPPGTGKTLLAKAVAS 111
G LF GP G GKT + ++
Sbjct: 489 GSFLFAGPTGVGKTEVTVQLSK 510
Score = 29.5 bits (67), Expect = 1.9
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 12/77 (15%)
Query: 93 LLFGPPGTGKTL----LAKAVASQ------HGSTFFNVLPSSLT--SKHYGESEKLVRAL 140
LL G G GKT LA + T +++ SL +K+ G+ EK +AL
Sbjct: 211 LLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKAL 270
Query: 141 FETARARAPAVIFIDEV 157
+ +++FIDE+
Sbjct: 271 LKQLEQDTNSILFIDEI 287
>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus
thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*
Length = 311
Score = 29.8 bits (68), Expect = 1.3
Identities = 13/24 (54%), Positives = 14/24 (58%)
Query: 87 RPWRGILLFGPPGTGKTLLAKAVA 110
RP L GP G GKT LAK +A
Sbjct: 45 RPIGSFLFLGPTGVGKTELAKTLA 68
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 29.4 bits (66), Expect = 1.3
Identities = 12/78 (15%), Positives = 26/78 (33%), Gaps = 17/78 (21%)
Query: 78 MPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQHGS-------TFFNVLPSSLTSKHY 130
M ++ IL G PG+GK+ A+ +++ + + + Y
Sbjct: 1 MKKI----------ILTIGCPGSGKSTWAREFIAKNPGFYNINRDDYRQSIMAHEERDEY 50
Query: 131 GESEKLVRALFETARARA 148
++K + A
Sbjct: 51 KYTKKKEGIVTGMQFDTA 68
>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM:
PF02562, ST genomics, PSI-2, protein structure
initiative; 2.35A {Corynebacterium glutamicum atcc
13032}
Length = 208
Score = 29.5 bits (67), Expect = 1.3
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 96 GPPGTGKTLLAKAVA 110
GP G+GKT LA A A
Sbjct: 29 GPAGSGKTYLAMAKA 43
>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 = 29.7 bits (66), Expect = 1.4
Identities = 10/35 (28%), Positives = 13/35 (37%), Gaps = 6/35 (17%)
Query: 92 ILLFGPPGTGKTLL----AKAVASQHGSTFFNVLP 122
L P G GK++L A +A G V
Sbjct: 33 GALVSPGGAGKSMLALQLAAQIAG--GPDLLEVGE 65
>2xdq_A Light-independent protochlorophyllide reductase S; oxidoreductase,
DPOR, (bacterio)chlorophyll biosynthesis,
photosynthesis; 2.40A {Thermosynechococcus elongatus}
Length = 460
Score = 29.8 bits (66), Expect = 1.4
Identities = 14/109 (12%), Positives = 26/109 (23%), Gaps = 21/109 (19%)
Query: 82 FKGILRPWRGI-----LLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKH----YGE 132
+ ++ I L+ G G + + L +
Sbjct: 24 ISCVAWLYQKIEDSFFLVIGTKTCG--YFLQNAMGVMIFAEPRYAMAELEEGDISAQLND 81
Query: 133 SEKLVRALFETARARAPAVIFI----------DEVDAFCSGSREHEATR 171
E+L R E R R P+VI +++
Sbjct: 82 YEELKRLCLEIKRDRNPSVIVWIGTCTTEIIKMDLEGLAPKLEAEIGIP 130
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 29.9 bits (67), Expect = 1.5
Identities = 8/40 (20%), Positives = 13/40 (32%), Gaps = 11/40 (27%)
Query: 90 RGILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKH 129
R +L+ G GTGK+ + + L
Sbjct: 54 RHLLVNGATGTGKS-----------VLLRELAYTGLLRGD 82
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL
helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 29.5 bits (65), Expect = 1.6
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNV 120
ILL G G GKT + + + +
Sbjct: 35 ILLGGQSGAGKTTIHRIKQKEFQGNIVII 63
>1l5w_A Maltodextrin phosphorylase; enzymatic catalysis, substrate complex,
trans; HET: GLC PLP; 1.80A {Escherichia coli} SCOP:
c.87.1.4 PDB: 1l5v_A* 1l6i_A* 2asv_A* 2av6_A* 2aw3_A*
2azd_A* 1qm5_A* 1e4o_A* 2ecp_A* 1ahp_A*
Length = 796
Score = 29.8 bits (68), Expect = 1.6
Identities = 14/55 (25%), Positives = 17/55 (30%), Gaps = 29/55 (52%)
Query: 5 KTNGATPKLAVVEKGKPRTGVPKVGPNRR----ANPELTALVEKDIVQTDTGVGW 55
TNG TP RR NP L AL++K + W
Sbjct: 447 VTNGITP--------------------RRWIKQCNPALAALLDKSL-----QKEW 476
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 29.5 bits (66), Expect = 1.7
Identities = 13/59 (22%), Positives = 25/59 (42%), Gaps = 7/59 (11%)
Query: 56 DDIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQHG 114
+ G ++ ++ ++ + R +L+ G PGTGKT +A +A G
Sbjct: 44 QGMVGQLAARRA-------AGVVLEMIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALG 95
>2gj4_A Glycogen phosphorylase, muscle form; transferase; HET: PLR 2TH;
1.60A {Oryctolagus cuniculus} SCOP: c.87.1.4 PDB:
2gm9_A* 1abb_A* 3nc4_A* 3l79_A* 2pyd_A* 2pyi_A* 3l7a_A*
3l7b_A* 3l7c_A* 3l7d_A* 2qnb_A* 1c8l_A* 1axr_A* 1gpy_A*
1e1y_A* 1lwo_A* 1pyg_A* 1uzu_A* 1lwn_A* 1xkx_A* ...
Length = 824
Score = 29.4 bits (67), Expect = 1.8
Identities = 13/55 (23%), Positives = 17/55 (30%), Gaps = 29/55 (52%)
Query: 5 KTNGATPKLAVVEKGKPRTGVPKVGPNRR----ANPELTALVEKDIVQTDTGVGW 55
KTNG TP RR NP L ++ + I G +
Sbjct: 471 KTNGITP--------------------RRWLVLCNPGLAEIIAERI-----GEEY 500
>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 = 29.8 bits (67), Expect = 1.8
Identities = 16/92 (17%), Positives = 34/92 (36%), Gaps = 15/92 (16%)
Query: 36 PELTALVEKDIVQTDTGVGWDDIAGLDNVKQIFKETLLLPKLMPQLFKG------ILRPW 89
+L AL++ + + G D G+ + + +P+ P +F ++
Sbjct: 81 KDLAALLQSGLPLVSSSSGKDTDGGITSFVRTVLCEGGVPQR-PVIFVTRKKLVHAIQQK 139
Query: 90 --------RGILLFGPPGTGKTLLAKAVASQH 113
+ ++G G GK++LA H
Sbjct: 140 LWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDH 171
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 29.4 bits (66), Expect = 2.0
Identities = 15/75 (20%), Positives = 29/75 (38%), Gaps = 19/75 (25%)
Query: 53 VGWDDIAGLDNVKQIFKETLLLPKLMPQL-FKGILRPW------------RGILLFGPPG 99
+ + + G++ F + P P + LR + RG ++ P G
Sbjct: 65 IEYFESNGIE-----FVDNAADPIPTPYFDAEISLRDYQEKALERWLVDKRGCIV-LPTG 118
Query: 100 TGKTLLAKAVASQHG 114
+GKT +A A ++
Sbjct: 119 SGKTHVAMAAINELS 133
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 28.2 bits (64), Expect = 2.0
Identities = 10/71 (14%), Positives = 24/71 (33%), Gaps = 17/71 (23%)
Query: 92 ILLFGPPGTGKTLLAKAV--ASQHGSTFF---NVLPSSLTSKHYGESEKLVRALFETARA 146
+ L+G PGTG+ A+ + ++ F + P ++ + A+
Sbjct: 27 VWLYGAPGTGRMTGARYLHQFGRNAQGEFVYRELTP---------DNAPQLNDFIALAQG 77
Query: 147 RAPAVIFIDEV 157
+ +
Sbjct: 78 ---GTLVLSHP 85
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 29.5 bits (66), Expect = 2.2
Identities = 21/95 (22%), Positives = 40/95 (42%), Gaps = 10/95 (10%)
Query: 93 LLFGPPGTGKTLLAKAVASQHGSTF-FNVL---PS-----SLTSKHYGESEKLVRALFET 143
L+ GPPGTGKT+ + + +L PS L +K K+VR ++
Sbjct: 379 LIQGPPGTGKTVTSATIVYHLSKIHKDRILVCAPSNVAVDHLAAKLRDLGLKVVRLTAKS 438
Query: 144 ARARAPAVIFIDEVDAFCSGSR-EHEATRRVRCEL 177
+V + + G++ E + +++ E+
Sbjct: 439 REDVESSVSNLALHNLVGRGAKGELKNLLKLKDEV 473
>2fh5_B SR-beta, signal recognition particle receptor beta subunit;
endomembrane targeting, GTPase, GAP, longin domain,
SEDL, transport protein; HET: GTP; 2.45A {Mus musculus}
SCOP: c.37.1.8 PDB: 2go5_2
Length = 214
Score = 28.6 bits (64), Expect = 2.4
Identities = 21/119 (17%), Positives = 42/119 (35%), Gaps = 19/119 (15%)
Query: 92 ILLFGPPGTGKT-LLAKAVASQHGSTF----FNVLPSSLTSKH--------YGESEKLVR 138
+L G +GKT L + + Q+ T + + + E L
Sbjct: 10 VLFVGLCDSGKTLLFVRLLTGQYRDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRF 69
Query: 139 ALFETARARAPAVIFIDEVDAFCSGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLA 197
L + ++ A AV+F+ VD+ + RE + ++L + +L+
Sbjct: 70 QLLDRFKSSARAVVFV--VDS-AAFQREVKDVAEFLYQVLIDSMALKNSP---SLLIAC 122
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 28.8 bits (63), Expect = 2.5
Identities = 14/58 (24%), Positives = 23/58 (39%), Gaps = 2/58 (3%)
Query: 74 LPKLMPQLFKGILRPWR--GILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKH 129
L + +L +G LL G PG+GKT L A+ + + + +H
Sbjct: 16 LNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVIDNDTFKQQH 73
>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop
kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex
aeolicus}
Length = 168
Score = 28.2 bits (64), Expect = 2.6
Identities = 6/27 (22%), Positives = 12/27 (44%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFF 118
I L G +GK+ + ++ F+
Sbjct: 3 IYLIGFMCSGKSTVGSLLSRSLNIPFY 29
>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 = 28.4 bits (64), Expect = 2.6
Identities = 12/27 (44%), Positives = 13/27 (48%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFF 118
I L G G GKT L KA A + F
Sbjct: 28 IFLTGYMGAGKTTLGKAFARKLNVPFI 54
>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 = 29.1 bits (66), Expect = 2.6
Identities = 12/19 (63%), Positives = 14/19 (73%), Gaps = 1/19 (5%)
Query: 94 LF-GPPGTGKTLLAKAVAS 111
LF GP G GKT LAK +A+
Sbjct: 592 LFLGPTGVGKTELAKTLAA 610
>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein
transport, G protein, proline isomerization, circular
permutation; 2.20A {Saccharomyces cerevisiae}
Length = 193
Score = 28.2 bits (63), Expect = 2.9
Identities = 25/121 (20%), Positives = 41/121 (33%), Gaps = 19/121 (15%)
Query: 92 ILLFGPPGTGKT-LLAKAVASQHGSTFFNVLPSSLTSKH--------YGESEKL---VRA 139
I++ GP +GKT LL T + P S + KL +
Sbjct: 51 IIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSD 110
Query: 140 LFETARARAPAVIFIDEVDAFCSGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAAT 199
+T +IF+ VD+ + E L + + S + G+ +L A
Sbjct: 111 YLKTRAKFVKGLIFM--VDSTVDPKKLTTTA-----EFLVDILSITESSCENGIDILIAC 163
Query: 200 N 200
N
Sbjct: 164 N 164
>2xdq_B Light-independent protochlorophyllide reductase S; oxidoreductase,
DPOR, (bacterio)chlorophyll biosynthesis,
photosynthesis; 2.40A {Thermosynechococcus elongatus}
Length = 511
Score = 28.6 bits (64), Expect = 3.0
Identities = 12/88 (13%), Positives = 27/88 (30%), Gaps = 15/88 (17%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKH---YGESEKLVRALFETARARA 148
++ P G + F + +S+ +H G EK+V +
Sbjct: 31 GIMHAPLGDDYF--NVMRSMLERERDFTPVTASIVDRHVLARGSQEKVVDNIIRKDTEEH 88
Query: 149 PAVIFI----------DEVDAFCSGSRE 166
P +I + +++ F +
Sbjct: 89 PDLIVLTPTCTSSILQEDLQNFVRRASL 116
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 28.6 bits (63), Expect = 3.1
Identities = 11/39 (28%), Positives = 16/39 (41%), Gaps = 2/39 (5%)
Query: 67 IFKETLLLPKLMPQLFKGILRPWRG--ILLFGPPGTGKT 103
++ + L L L G +L+ G PG GKT
Sbjct: 137 VYSDMAKLRTLRRLLKDGEPHVSSAKVVLVDGVPGCGKT 175
>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 = 28.3 bits (64), Expect = 3.4
Identities = 12/28 (42%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 93 LLFGPPGTGKT----LLAKAVASQHGST 116
L G G GKT LLAK + + G T
Sbjct: 42 LFSGTRGVGKTSIARLLAKGLNCETGIT 69
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 28.1 bits (62), Expect = 3.6
Identities = 10/23 (43%), Positives = 12/23 (52%)
Query: 90 RGILLFGPPGTGKTLLAKAVASQ 112
R + L GPPG GKT L +
Sbjct: 2 RHVFLTGPPGVGKTTLIHKASEV 24
>1ygp_A Yeast glycogen phosphorylase; phosphorylated form,
glycosyltransferase; HET: PLP; 2.80A {Saccharomyces
cerevisiae} SCOP: c.87.1.4
Length = 879
Score = 28.7 bits (65), Expect = 3.7
Identities = 13/55 (23%), Positives = 17/55 (30%), Gaps = 26/55 (47%)
Query: 5 KTNGATPKLAVVEKGKPRTGVPKVGPNRR----ANPELTALVEKDIVQTDTGVGW 55
TNG TP RR ANP L L+ + + D +
Sbjct: 512 VTNGITP--------------------RRWLKQANPSLAKLISETL--NDPTEEY 544
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 28.5 bits (63), Expect = 3.7
Identities = 8/43 (18%), Positives = 17/43 (39%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKHYGESE 134
++L G PG+GK+ +A+ + + L +
Sbjct: 27 VILVGSPGSGKSTIAEELCQIINEKYHTFLSEHPNVIEVNDRL 69
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 28.0 bits (62), Expect = 3.9
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFF 118
I + GP G GKT A + + +F
Sbjct: 8 IWINGPFGVGKTHTAHTLHERLPGSFV 34
>1nrj_B SR-beta, signal recognition particle receptor beta subunit;
transmembrane, endoplasmic reticulum, GTP-binding; HET:
GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8
Length = 218
Score = 27.8 bits (62), Expect = 4.1
Identities = 27/121 (22%), Positives = 45/121 (37%), Gaps = 19/121 (15%)
Query: 92 ILLFGPPGTGKT-LLAK--------AVASQHGSTFFNVLPSSLTSKHYGESEKL---VRA 139
I++ GP +GKT LL V SQ + + S +T + KL +
Sbjct: 15 IIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAADYDGSGVTLVDFPGHVKLRYKLSD 74
Query: 140 LFETARARAPAVIFIDEVDAFCSGSREHEATRRVRCELLSHMDGVGTGSGDKGVLVLAAT 199
+T +IF+ VD+ + E L + + S + G+ +L A
Sbjct: 75 YLKTRAKFVKGLIFM--VDSTVDPKKLTTTA-----EFLVDILSITESSCENGIDILIAC 127
Query: 200 N 200
N
Sbjct: 128 N 128
>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics,
structural genomics consortium, SGC, unknown function;
1.70A {Plasmodium falciparum}
Length = 187
Score = 27.7 bits (62), Expect = 4.2
Identities = 24/77 (31%), Positives = 38/77 (49%), Gaps = 13/77 (16%)
Query: 94 LFGPPGTGKTLLAKAVA----------SQHGSTFFNVLPSSLT--SKHYGESEKLVRA-L 140
L G PG GKT + + +A S G ++ SSL +K+ G+ E+ +++ L
Sbjct: 48 LLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYRGDFEERLKSIL 107
Query: 141 FETARARAPAVIFIDEV 157
E A V+FIDE+
Sbjct: 108 KEVQDAEGQVVMFIDEI 124
>3es5_A Putative capsid protein; partitivirus, RNA virus, double stranded
RNA virus, dsRNA virus, "T=2" capsid, icosahedral virus;
3.30A {Penicillium stoloniferum virus F}
Length = 420
Score = 28.4 bits (62), Expect = 4.2
Identities = 17/75 (22%), Positives = 22/75 (29%)
Query: 57 DIAGLDNVKQIFKETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQHGST 116
D+ D +I LM + I GPP G T S G+T
Sbjct: 305 DLLYADGAYEISALRDQFELLMARYTTDFKWRVESIFKVGPPPAGTTGYGAQTVSSTGNT 364
Query: 117 FFNVLPSSLTSKHYG 131
P S + G
Sbjct: 365 ARWQFPLSDADINIG 379
>2c4m_A Glycogen phosphorylase; allosteric control, phosphate dependence,
starch degrading, transferase, glycosyltransferase; HET:
PLP; 1.9A {Corynebacterium callunae}
Length = 796
Score = 28.2 bits (64), Expect = 4.3
Identities = 12/46 (26%), Positives = 15/46 (32%), Gaps = 24/46 (52%)
Query: 5 KTNGATPKLAVVEKGKPRTGVPKVGPNRR----ANPELTALVEKDI 46
KTNG TP RR NP L+ L+ +
Sbjct: 436 KTNGVTP--------------------RRWLRMINPGLSDLLTRLS 461
>3zs7_A Pyridoxal kinase; transferase, sleeping sickness; HET: ATP; 2.00A
{Trypanosoma brucei}
Length = 300
Score = 27.9 bits (62), Expect = 4.4
Identities = 18/96 (18%), Positives = 33/96 (34%), Gaps = 10/96 (10%)
Query: 125 LTSKHYGESEKLVRALFETARARAPAVIFI---------DEVDAFCSGSREHEATRRVRC 175
L+ + + A + A + I + S EA R
Sbjct: 156 LSGVTVNDLSSAILAA-DWFHNCGVAHVIIKSFREQENPTHLRFLYSVKEGSEAAVRRFS 214
Query: 176 ELLSHMDGVGTGSGDKGVLVLAATNHPWDLDEALKR 211
++ + +G TG+GD L A +H +D A+ +
Sbjct: 215 GVVPYHEGRYTGTGDVFAACLLAFSHSHPMDVAIGK 250
>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 = 28.4 bits (63), Expect = 4.5
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 92 ILLFGPPGTGKTLLAKAVASQH 113
+ L G G+GK+++A S+
Sbjct: 155 LFLHGRAGSGKSVIASQALSKS 176
>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 = 27.9 bits (63), Expect = 4.6
Identities = 12/28 (42%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 93 LLFGPPGTGKT----LLAKAVASQHGST 116
L G G GKT LLAK + + G T
Sbjct: 49 LFSGTRGVGKTSIARLLAKGLNCETGIT 76
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat
ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 27.8 bits (62), Expect = 5.0
Identities = 16/49 (32%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 70 ETLLLPKLMPQLFKGILRPWRGILLFGPPGTGKTLLAKAVASQHGSTFF 118
E +L K ++ + R + L G G+GKT + K +A G TFF
Sbjct: 31 EQQILKKKAEEVKPYLNG--RSMYLVGMMGSGKTTVGKIMARSLGYTFF 77
>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 = 28.0 bits (62), Expect = 5.1
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 93 LLFGPPGTGKTLLAKAVASQH 113
L+ GPPGTGKT+ + +
Sbjct: 375 LIQGPPGTGKTVTSATIVYHL 395
>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic
region; yeast protein, ATP binding protein; 2.25A
{Saccharomyces cerevisiae} SCOP: c.37.1.6
Length = 290
Score = 27.7 bits (60), Expect = 5.5
Identities = 12/66 (18%), Positives = 21/66 (31%), Gaps = 7/66 (10%)
Query: 69 KETLLLPKLMPQLFKGILRPWRG-------ILLFGPPGTGKTLLAKAVASQHGSTFFNVL 121
K +L + L K I + I GP G+GK+ + + + +
Sbjct: 4 KSKTVLDYTIEFLDKYIPEWFETGNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEK 63
Query: 122 PSSLTS 127
S
Sbjct: 64 SIGYAS 69
>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis,
nucleotide-binding, transferase, structural genomics;
1.80A {Thermus thermophilus}
Length = 186
Score = 27.1 bits (61), Expect = 6.3
Identities = 11/29 (37%), Positives = 15/29 (51%), Gaps = 4/29 (13%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHG----ST 116
++ GPPG GK A +A + G ST
Sbjct: 7 VIFLGPPGAGKGTQASRLAQELGFKKLST 35
>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 = 27.1 bits (61), Expect = 6.4
Identities = 7/24 (29%), Positives = 11/24 (45%), Gaps = 2/24 (8%)
Query: 92 ILLFGPPGTGKT--LLAKAVASQH 113
++GP +GKT L + S
Sbjct: 23 TQVYGPYASGKTTLALQTGLLSGK 46
>1mio_A Nitrogenase molybdenum iron protein (alpha chain); HET: HCA CFM
CLP; 3.00A {Clostridium pasteurianum} SCOP: c.92.2.3
Length = 533
Score = 27.6 bits (61), Expect = 6.4
Identities = 18/93 (19%), Positives = 33/93 (35%), Gaps = 18/93 (19%)
Query: 92 ILLFGPPG-TGKTLLAKAVASQH----GSTFFNVLPSS-LTSKH--YGESEKLVRALFET 143
+ GP G + T + S+ G F + S+ + +G KL A+ E
Sbjct: 70 HITHGPIGCSFYTWGGRRFKSKPENGTGLNFNEYVFSTDMQESDIVFGGVNKLKDAIHEA 129
Query: 144 ARARAPAVIFI----------DEVDAFCSGSRE 166
PA I + D++ A + + +
Sbjct: 130 YEMFHPAAIGVYATCPVGLIGDDILAVAATASK 162
>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 = 27.6 bits (62), Expect = 6.5
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 17/61 (27%)
Query: 58 IAGLDNVKQIFKETLLLPKLMPQLFKGILRPW-----RG---ILLFGPPGTGKTLLAKAV 109
I G +K E L L LF G+ + RG IL+ G PGT K+ + + +
Sbjct: 297 IYGHWELK----EALAL-----ALFGGVPKVLEDTRIRGDIHILIIGDPGTAKSQMLQFI 347
Query: 110 A 110
+
Sbjct: 348 S 348
>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli}
SCOP: c.37.1.20
Length = 195
Score = 27.3 bits (61), Expect = 6.6
Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 13/77 (16%)
Query: 94 LFGPPGTGKTLLAKAVA----------SQHGSTFFNVLPSSLT--SKHYGESEKLVRA-L 140
L G PG GKT + + +A G + +L +K+ GE E+ ++ L
Sbjct: 48 LIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEFEERLKGVL 107
Query: 141 FETARARAPAVIFIDEV 157
+ A+ ++FIDE+
Sbjct: 108 NDLAKQEGNVILFIDEL 124
>3u7q_B Nitrogenase molybdenum-iron protein beta chain; multiple rossmann
fold domains, reductase, nitrogen fixing,
oxidoreductase; HET: HCA ICS 1CL CLF; 1.00A {Azotobacter
vinelandii} PDB: 1fp4_B* 1g21_B* 1g20_B* 1m1n_B* 1l5h_B*
1m1y_B* 1m34_B* 1n2c_B* 2afh_B* 2afi_B* 2afk_B* 2min_B*
3k1a_B* 3min_B*
Length = 523
Score = 27.8 bits (62), Expect = 6.8
Identities = 13/83 (15%), Positives = 31/83 (37%), Gaps = 14/83 (16%)
Query: 96 GPPGTGKTLLAKAVASQHGSTFFNVLPSSLTSKH--YGESEKLVRALFETARARAPAVIF 153
G G ++ ++H + + S+T +G + + L P +I
Sbjct: 91 GSQGC--VAYFRSYFNRHFREPVSCVSDSMTEDAAVFGGQQNMKDGLQNCKATYKPDMIA 148
Query: 154 I----------DEVDAFCSGSRE 166
+ D+++AF + S++
Sbjct: 149 VSTTCMAEVIGDDLNAFINNSKK 171
>3ney_A 55 kDa erythrocyte membrane protein; structural genomics
consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A
{Homo sapiens}
Length = 197
Score = 27.2 bits (61), Expect = 7.2
Identities = 8/28 (28%), Positives = 16/28 (57%)
Query: 90 RGILLFGPPGTGKTLLAKAVASQHGSTF 117
+ ++L G G G++ + A+ SQ+ F
Sbjct: 20 KTLVLIGASGVGRSHIKNALLSQNPEKF 47
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 27.6 bits (60), Expect = 7.6
Identities = 8/27 (29%), Positives = 10/27 (37%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFF 118
I GP +GKT A S +
Sbjct: 158 IFHSGPTNSGKTYHAIQKYFSAKSGVY 184
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 26.9 bits (60), Expect = 7.7
Identities = 11/45 (24%), Positives = 19/45 (42%), Gaps = 13/45 (28%)
Query: 82 FKGILRPW------------RGILLFGPPGTGKTLLAKAVASQHG 114
+ LR + RG ++ P G+GKT +A A ++
Sbjct: 90 AEISLRDYQEKALERWLVDKRGCIV-LPTGSGKTHVAMAAINELS 133
>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like
domain, protein binding; 1.31A {Homo sapiens} SCOP:
c.37.1.1
Length = 180
Score = 26.7 bits (60), Expect = 7.8
Identities = 6/28 (21%), Positives = 14/28 (50%)
Query: 90 RGILLFGPPGTGKTLLAKAVASQHGSTF 117
+ ++L G G G+ + + ++H F
Sbjct: 6 KTLVLLGAHGVGRRHIKNTLITKHPDRF 33
>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A
{Sulfolobus acidocaldarius} SCOP: c.37.1.1
Length = 194
Score = 27.0 bits (59), Expect = 8.0
Identities = 7/29 (24%), Positives = 12/29 (41%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHGSTFFNV 120
++ G PG GK+ + V + N
Sbjct: 4 GIVTGIPGVGKSTVLAKVKEILDNQGINN 32
>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis;
HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB:
2ze5_A* 2ze7_A* 2ze8_A
Length = 253
Score = 27.1 bits (60), Expect = 8.0
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHG 114
L++GP +GKT +A +A + G
Sbjct: 4 HLIYGPTCSGKTDMAIQIAQETG 26
>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase;
HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A*
3l0p_A*
Length = 223
Score = 26.9 bits (60), Expect = 8.0
Identities = 8/11 (72%), Positives = 10/11 (90%)
Query: 92 ILLFGPPGTGK 102
IL+FGP G+GK
Sbjct: 3 ILIFGPNGSGK 13
>3co5_A Putative two-component system transcriptional RES regulator;
structural genomics, APC89341.1; 2.40A {Neisseria
gonorrhoeae}
Length = 143
Score = 26.4 bits (59), Expect = 8.8
Identities = 4/18 (22%), Positives = 8/18 (44%)
Query: 92 ILLFGPPGTGKTLLAKAV 109
+ L G G+ +A+
Sbjct: 30 VFLTGEAGSPFETVARYF 47
>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 = 26.9 bits (59), Expect = 8.9
Identities = 6/33 (18%), Positives = 12/33 (36%)
Query: 88 PWRGILLFGPPGTGKTLLAKAVASQHGSTFFNV 120
+ +++ G PG G T ++ N
Sbjct: 2 KNKVVVVTGVPGVGSTTSSQLAMDNLRKEGVNY 34
>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 = 26.8 bits (60), Expect = 9.4
Identities = 4/23 (17%), Positives = 13/23 (56%)
Query: 92 ILLFGPPGTGKTLLAKAVASQHG 114
+++ G P +GK + + +++
Sbjct: 8 VMISGAPASGKGTQCELIKTKYQ 30
>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism,
ATP-binding, nucleotide biosynthesis,
nucleotide-binding, transferase; HET: ADP; 1.9A
{Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A
Length = 201
Score = 26.8 bits (60), Expect = 9.9
Identities = 8/11 (72%), Positives = 9/11 (81%)
Query: 92 ILLFGPPGTGK 102
+LL GPPG GK
Sbjct: 23 VLLLGPPGAGK 33
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.137 0.405
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,417,490
Number of extensions: 343703
Number of successful extensions: 1216
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1115
Number of HSP's successfully gapped: 214
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 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (26.0 bits)