RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2778
(409 letters)
>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 = 525 bits (1353), Expect = 0.0
Identities = 321/409 (78%), Positives = 368/409 (89%), Gaps = 7/409 (1%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
+IKSKKMAGRA+L+AGPPGTGKTA+ALA++ ELG+KVPFCPMVGSEV+S+EIKKTEVLME
Sbjct: 55 LIKSKKMAGRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEIKKTEVLME 114
Query: 61 NFRRAIGLRIKESKEVYEGEVTELTPVETENPMGGYGKTVSHVIIGLKTAKGTKQLKLDP 120
NFRRAIGLRIKE+KEVYEGEVTELTP ETENPMGGYGKT+SHVIIGLKTAKGTKQLKLDP
Sbjct: 115 NFRRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDP 174
Query: 121 TIYESLQKEKVEVGDVIYIEANSGAVKRQGRSDTFAAEFDLEAEEYVPLPKGDVHKKKEV 180
+I+ESLQKE+VE GDVIYIEANSGAVKRQGR DT+A EFDLEAEEYVPLPKGDVHKKKE+
Sbjct: 175 SIFESLQKERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKGDVHKKKEI 234
Query: 181 IQDVTLHDLDMANAKPQGGQDILSMVGQLIKSKKTEITDKLRKEINKVVNKYIDQGIAEL 240
IQDVTLHDLD+ANA+PQGGQDILSM+GQL+K KKTEITDKLR EINKVVNKYIDQGIAEL
Sbjct: 235 IQDVTLHDLDVANARPQGGQDILSMMGQLMKPKKTEITDKLRGEINKVVNKYIDQGIAEL 294
Query: 241 VPGVLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISP 300
VPGVLF+DEVHMLD +E FTYLHRALES+IAPIVIFA+NRG C++RGT+DI SP
Sbjct: 295 VPGVLFVDEVHMLD-------IECFTYLHRALESSIAPIVIFASNRGNCVIRGTEDITSP 347
Query: 301 HGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVV 360
HGIPLDLLDR++IIRT Y ++M+ IIK+RA TEG + +EAL L EIGT++TLRY V
Sbjct: 348 HGIPLDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEALNHLGEIGTKTTLRYSV 407
Query: 361 QLLTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFMR 409
QLLTPA L AK NG+ +I K+ + E+S LF DAKSSA+IL + +DK+M+
Sbjct: 408 QLLTPANLLAKINGKDSIEKEHVEEISELFYDAKSSAKILADQQDKYMK 456
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 304 bits (780), Expect = e-101
Identities = 120/382 (31%), Positives = 184/382 (48%), Gaps = 64/382 (16%)
Query: 27 LAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAIGLRIKESKEVYEGEVTELTP 86
L + L + MVG RRA G+ ++ +E L
Sbjct: 31 LGLDDALEPRQASQGMVG--------------QLAARRAAGVVLEMIREGKIAGRAVLIA 76
Query: 87 VETENPMGGYGKTVSHVIIGLKTAKGTKQLKLDPTIYESLQKEKVEVGDVIYIEANSGAV 146
+ G GKT + +G+ A G E E + + A+
Sbjct: 77 GQP-----GTGKTA--IAMGMAQALGPDTPFTAIAGSEIFSLEM----------SKTEAL 119
Query: 147 KRQGRSDTFAAEFDLEAEEYVPLPKGDVHKKKEVIQDVTLHDLDMANAKPQGGQDILSMV 206
+ R V K + V+LH++D+ N++ QG
Sbjct: 120 TQAFRRS------------------IGVRIKAGAVHTVSLHEIDVINSRTQG-------F 154
Query: 207 GQLIKSKKTEITDKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFMPHLETFT 266
L EI ++R++IN V ++ ++G AE++PGVLFIDEVHMLD+E+F +
Sbjct: 155 LALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDEVHMLDIESF-------S 207
Query: 267 YLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEA 326
+L+RALES +AP++I ATNRG +RGT SPHGIP+DLLDRLLI+ TTPY++KD +
Sbjct: 208 FLNRALESDMAPVLIMATNRGITRIRGTS-YQSPHGIPIDLLDRLLIVSTTPYSEKDTKQ 266
Query: 327 IIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEV 386
I+++R E + ++A L+ IG ++LRY +QL+T A+L + T + DI V
Sbjct: 267 ILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAIQLITAASLVCRKRKGTEVQVDDIKRV 326
Query: 387 STLFLDAKSSARILTENKDKFM 408
+LFLD S + + E +D F+
Sbjct: 327 YSLFLDESRSTQYMKEYQDAFL 348
Score = 69.6 bits (170), Expect = 3e-13
Identities = 44/84 (52%), Positives = 59/84 (70%), Gaps = 1/84 (1%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
MI+ K+AGRA+L+AG PGTGKTAIA+ M+ LG PF + GSE+FS E+ KTE L +
Sbjct: 62 MIREGKIAGRAVLIAGQPGTGKTAIAMGMAQALGPDTPFTAIAGSEIFSLEMSKTEALTQ 121
Query: 61 NFRRAIGLRIKESKEVYEGEVTEL 84
FRR+IG+RIK V+ + E+
Sbjct: 122 AFRRSIGVRIKAG-AVHTVSLHEI 144
>2cqa_A RUVB-like 2; TIP48, TIP49B, reptin 52, ECP-51, TAP54-beta,
structural genomics, NPPSFA; NMR {Homo sapiens} SCOP:
b.40.4.14
Length = 95
Score = 131 bits (331), Expect = 7e-38
Identities = 34/96 (35%), Positives = 48/96 (50%), Gaps = 5/96 (5%)
Query: 65 AIGLRIKESKEVYEGEVTELTPVETENPMGGYGKTVSHVIIGLKTAKGTKQLKLDPTIYE 124
+ G KE E+ EGEV E+ + + P G G V + LKT + L + E
Sbjct: 2 SSGSSGKEETEIIEGEVVEI---QIDRPATGTGSKVGKLT--LKTTEMETIYDLGTKMIE 56
Query: 125 SLQKEKVEVGDVIYIEANSGAVKRQGRSDTFAAEFD 160
SL K+KV+ GDVI I+ +G + + GRS T A
Sbjct: 57 SLTKDKVQAGDVITIDKATGKISKLGRSFTRARSGP 92
>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 = 56.4 bits (135), Expect = 1e-08
Identities = 70/474 (14%), Positives = 149/474 (31%), Gaps = 159/474 (33%)
Query: 12 ILMAGPPGTGKT--AIALAMSHELGNKVPFCPMVGSEVF---SSEIKKTEVLMENFRR-- 64
+L+ G G+GKT A+ + +S+++ K+ F ++F E ++E ++
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKMDF------KIFWLNLKNCNSPETVLEMLQKLL 206
Query: 65 ---------------AIGLRIKESKE--------------------VYEGEVTEL----- 84
I LRI + V +
Sbjct: 207 YQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC 266
Query: 85 -TPVETENPMGGYGKTVSHVIIGLKTAKGTKQLKLDPTIYESLQKEKVEVGDVI--YIEA 141
+ T K V+ + T + LD +L ++V+ ++ Y++
Sbjct: 267 KILLTTRF------KQVTDFLSAAT----TTHISLDH-HSMTLTPDEVK--SLLLKYLDC 313
Query: 142 NSGAVKRQGRS------DTFAAEFDLEAEEYVPLPKGDVHKKKEVIQDVTLHDLDMANAK 195
+ R+ + A + + K +I+ +L+ L+ A +
Sbjct: 314 RPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIE-SSLNVLEPAEYR 372
Query: 196 ---------PQGGQ---DILSMV-GQLIKSKKTEITDKLRKEINKVVNKYIDQGIAELVP 242
P +LS++ +IKS + +KL K +V K + +
Sbjct: 373 KMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY--SLVEKQPKESTISI-- 428
Query: 243 GVLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISP-- 300
+ LE LE LHR++ + + + +DD+I P
Sbjct: 429 --------PSIYLE-LKVKLENEYALHRSI------VDHYNIPKTFD----SDDLIPPYL 469
Query: 301 ----------H--------------GIPLDL--LDRLLIIRTTPYNQKD--MEAIIKLRA 332
H + LD L++ + +T +N + + +L+
Sbjct: 470 DQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLK- 528
Query: 333 NTEGHVLDDEA------------LVTLSEIGTRSTLRYVVQLLTPAALTAKTNG 374
+ ++ D++ L + E S ++++ AL A+
Sbjct: 529 FYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRI----ALMAEDEA 578
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 53.1 bits (127), Expect = 1e-07
Identities = 49/293 (16%), Positives = 87/293 (29%), Gaps = 79/293 (26%)
Query: 153 DTFAAEFDLEAE--EYV--PLPKGDVHKKKEVIQDVTLHDLDMANAKPQGGQDILSMVGQ 208
D +L + YV + V + +V+ L G DI ++ +
Sbjct: 52 DEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLC----LTEFENCYLEGNDIHALAAK 107
Query: 209 LIKSKKTEITDKL---------RKEINKVVNKY--------IDQGIAELVPGVLF----- 246
L++ T + R + +K + +G A+LV +F
Sbjct: 108 LLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV--AIFGGQGN 165
Query: 247 ----IDEVHMLDL-ETFMPHLETFTYLHRA-LESAIAPIVIFATNRGRCLVRGTDDIISP 300
+E + DL +T+ + L L+R T D
Sbjct: 166 TDDYFEE--LRDLYQTYHVLVGDLIKFSAETLSE---------------LIRTTLDAEKV 208
Query: 301 HGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVV 360
L++L+ L P N D + + ++ IG YVV
Sbjct: 209 FTQGLNILEWL----ENPSNTPDKDYL-------------LSIPISCPLIGVIQLAHYVV 251
Query: 361 QL----LTPAALTAKTNGRTAISKQDILEVSTLFLDAKSSARILTENKDKFMR 409
TP L + G T S Q + V+ + + S + K +
Sbjct: 252 TAKLLGFTPGELRSYLKGATGHS-QGL--VTAVAIAETDSWESFFVSVRKAIT 301
Score = 48.5 bits (115), Expect = 3e-06
Identities = 53/314 (16%), Positives = 92/314 (29%), Gaps = 111/314 (35%)
Query: 149 QG------------RSDTFAAEFDLEAEEYVPLPKGDVHKKKEVIQDVTLHDLDMANAK- 195
QG S ++ A+ + G I D+ ++ N
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDVWN-RADNHFKDTYG------FSILDIVIN-----NPVN 1671
Query: 196 ------PQGGQDI----LSMVGQLIKSKKTEITDKLRKEINKVVNKYIDQGIAELVPGVL 245
+ G+ I +M+ + I K + T+K+ KEIN+ Y + L
Sbjct: 1672 LTIHFGGEKGKRIRENYSAMIFETIVDGKLK-TEKIFKEINEHSTSYTFRSEKGL----- 1725
Query: 246 FIDEVHMLDLETFM-PHLETFTY-LHRALESA--IAPIVIFATNRGRCLVRGTDDIISPH 301
L F P L L+S I FA G H
Sbjct: 1726 -------LSATQFTQPALTLMEKAAFEDLKSKGLIPADATFA---G-------------H 1762
Query: 302 --G-----------IPL-DLLDRLLIIR------TTPYNQ--KDMEAIIKLRANTEGHVL 339
G + + L+ ++ R P ++ + +I +
Sbjct: 1763 SLGEYAALASLADVMSIESLV-EVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASF 1821
Query: 340 DDEALVTLSE-IGTRSTLRYVVQLL-------------TPAALTAKTNGRTAISKQDI-- 383
EAL + E +G R+ ++V+++ AL TN I Q I
Sbjct: 1822 SQEALQYVVERVGKRTG--WLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDI 1879
Query: 384 --LEVSTLFLDAKS 395
L+ S + +
Sbjct: 1880 IELQKSLSLEEVEG 1893
>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 = 49.7 bits (119), Expect = 5e-07
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 4/58 (6%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFS--SEIKKTEVLMENFRRA 65
++L+ GPP +GKTA+A ++ E PF + + SE K + + + F A
Sbjct: 65 VSVLLEGPPHSGKTALAAKIAEESN--FPFIKICSPDKMIGFSETAKCQAMKKIFDDA 120
>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 = 47.9 bits (114), Expect = 4e-06
Identities = 24/57 (42%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTE-VLMENFRRA 65
R IL+ GPPGTGKT IA A+++E G F + G E+ S ++E L + F A
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLAGESESNLRKAFEEA 293
>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 = 45.3 bits (107), Expect = 2e-05
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKV 37
RA ++ GPPG GKT A ++ ELG +
Sbjct: 78 RAAMLYGPPGIGKTTAAHLVAQELGYDI 105
>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 = 44.0 bits (104), Expect = 7e-05
Identities = 24/58 (41%), Positives = 33/58 (56%), Gaps = 3/58 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTE-VLMENFRRAI 66
R IL+ GPPGTGKT IA A+++E G F + G E+ S ++E L + F A
Sbjct: 239 RGILLYGPPGTGKTLIARAVANETG--AFFFLINGPEIMSKLAGESESNLRKAFEEAE 294
Score = 40.5 bits (95), Expect = 8e-04
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTE-VLMENFRRA 65
+ +L GPPG GKT +A A+++E F + G E+ + ++E + E F +A
Sbjct: 512 KGVLFYGPPGCGKTLLAKAIANECQ--ANFISIKGPELLTMWFGESEANVREIFDKA 566
>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 = 43.0 bits (102), Expect = 8e-05
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ L+ GPPG GKT +A A++ E VPF M G+E
Sbjct: 40 KGALLLGPPGCGKTLLAKAVATEAQ--VPFLAMAGAE 74
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 42.7 bits (101), Expect = 1e-04
Identities = 18/37 (48%), Positives = 25/37 (67%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +LM GPPGTGKT +A A++ E VPF + GS+
Sbjct: 46 KGVLMVGPPGTGKTLLAKAIAGEAK--VPFFTISGSD 80
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 42.7 bits (101), Expect = 1e-04
Identities = 18/47 (38%), Positives = 26/47 (55%), Gaps = 5/47 (10%)
Query: 3 KSKKMAGR---AILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +M R +L+ GPPG GKT +A A++ E VPF GS+
Sbjct: 64 RFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEAR--VPFITASGSD 108
>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 = 42.3 bits (100), Expect = 1e-04
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +L+ GPPG GKT +A A++ E VPF GS+
Sbjct: 50 KGVLLVGPPGVGKTHLARAVAGEAR--VPFITASGSD 84
>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 = 42.2 bits (100), Expect = 1e-04
Identities = 18/37 (48%), Positives = 24/37 (64%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +L+ GPPGTGKT +A A++ E VPF M GS
Sbjct: 45 KGVLLVGPPGTGKTLLAKAVAGEAH--VPFFSMGGSS 79
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 41.8 bits (99), Expect = 3e-04
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ +L+ GPPG GKT +A A++ E VPF GS+
Sbjct: 65 KGVLLVGPPGVGKTHLARAVAGEAR--VPFITASGSD 99
>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 = 41.4 bits (98), Expect = 3e-04
Identities = 18/37 (48%), Positives = 25/37 (67%), Gaps = 2/37 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
+ IL+ GPPGTGKT +A A++ E VPF + GS+
Sbjct: 50 KGILLVGPPGTGKTLLARAVAGEAN--VPFFHISGSD 84
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 40.9 bits (96), Expect = 4e-04
Identities = 11/57 (19%), Positives = 23/57 (40%), Gaps = 3/57 (5%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLM-ENFRRA 65
+ + G G GK+ + ++G + M E+ S + L+ + +R A
Sbjct: 37 LILGIWGGKGQGKSFQCELVFRKMG--INPIMMSAGELESGNAGEPAKLIRQRYREA 91
>2chg_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATPase, ATP-binding,
nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus
fulgidus}
Length = 226
Score = 40.3 bits (95), Expect = 4e-04
Identities = 13/23 (56%), Positives = 19/23 (82%)
Query: 12 ILMAGPPGTGKTAIALAMSHELG 34
+L +GPPGTGKTA A+A++ +L
Sbjct: 41 LLFSGPPGTGKTATAIALARDLF 63
>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 = 39.4 bits (91), Expect = 6e-04
Identities = 8/30 (26%), Positives = 12/30 (40%)
Query: 7 MAGRAILMAGPPGTGKTAIALAMSHELGNK 36
M R I++ G GK+ I + L
Sbjct: 1 MTTRMIILNGGSSAGKSGIVRCLQSVLPEP 30
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 40.8 bits (96), Expect = 6e-04
Identities = 28/187 (14%), Positives = 56/187 (29%), Gaps = 61/187 (32%)
Query: 243 GVLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPI----------------------V 280
GVLFIDE+ L + + L A++ PI +
Sbjct: 203 GVLFIDEIATLS----LKMQQ---SLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVL 255
Query: 281 IFATNRGRCLVRGTDDIISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIK----------- 329
+ A N + + L R+ Y + M I+
Sbjct: 256 VAAGNL-----------DTVDKMHPALRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQ 304
Query: 330 -LRANTEGHVLDDEALVTLSEIGTR---------STLRYVVQLLTPAALTAKTNGRTAIS 379
++ + + EA+ + + LR + ++ A A G+ +
Sbjct: 305 EVKRDGKIPHFTKEAVEEIVREAQKRAGRKGHLTLRLRDLGGIVRAAGDIAVKKGKKYVE 364
Query: 380 KQDILEV 386
++D++E
Sbjct: 365 REDVIEA 371
Score = 32.0 bits (73), Expect = 0.42
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 2 IKSKKMAG---RAILMAGPPGTGKTAIALAMSHELGNKVP 38
++ K A R +L+ G PGTGK+ + AM+ L +
Sbjct: 50 VEVIKTAANQKRHVLLIGEPGTGKSMLGQAMAELLPTETL 89
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 40.3 bits (95), Expect = 7e-04
Identities = 18/38 (47%), Positives = 24/38 (63%), Gaps = 2/38 (5%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFS 49
IL+ GPPGTGKT +A A++ E F +VGSE+
Sbjct: 54 ILLYGPPGTGKTLLAKAVATETN--ATFIRVVGSELVK 89
>2chq_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATP ATP-binding,
nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus
fulgidus} PDB: 2chv_A
Length = 319
Score = 40.0 bits (94), Expect = 0.001
Identities = 13/23 (56%), Positives = 19/23 (82%)
Query: 12 ILMAGPPGTGKTAIALAMSHELG 34
+L +GPPGTGKTA A+A++ +L
Sbjct: 41 LLFSGPPGTGKTATAIALARDLF 63
>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP,
replication; HET: ADP; 2.80A {Pyrococcus furiosus}
SCOP: a.80.1.1 c.37.1.20
Length = 327
Score = 39.3 bits (92), Expect = 0.002
Identities = 14/23 (60%), Positives = 17/23 (73%)
Query: 12 ILMAGPPGTGKTAIALAMSHELG 34
+L AGPPG GKT ALA++ EL
Sbjct: 49 LLFAGPPGVGKTTAALALARELF 71
>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 = 39.2 bits (92), Expect = 0.002
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 11/61 (18%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFS-----SEIKKTEVLMENFRR 64
+ +L GPPG GKT +A A+++E F + G E+ + SE E+ F +
Sbjct: 50 KGVLFYGPPGCGKTLLAKAIANECQ--ANFISIKGPELLTMWFGESEANVREI----FDK 103
Query: 65 A 65
A
Sbjct: 104 A 104
>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 = 39.0 bits (91), Expect = 0.002
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
+ IL+ GPPGTGKT I ++ + G
Sbjct: 118 KGILLFGPPGTGKTLIGKCIASQSG 142
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 39.0 bits (91), Expect = 0.002
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
R +L+ GPPG GKT +A A++ E
Sbjct: 149 RGLLLFGPPGNGKTMLAKAVAAESN 173
>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 = 37.8 bits (87), Expect = 0.002
Identities = 11/28 (39%), Positives = 20/28 (71%)
Query: 7 MAGRAILMAGPPGTGKTAIALAMSHELG 34
+ G +L++G PG+GK+ IA A+++ G
Sbjct: 7 LGGNILLLSGHPGSGKSTIAEALANLPG 34
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding,
nucleotide-binding, hydrolase; 2.70A {Drosophila
melanogaster}
Length = 297
Score = 38.4 bits (90), Expect = 0.003
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
+ +L+ GPPG GKT +A A++ E
Sbjct: 55 KGLLLFGPPGNGKTLLARAVATECS 79
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 37.7 bits (88), Expect = 0.005
Identities = 13/23 (56%), Positives = 18/23 (78%)
Query: 10 RAILMAGPPGTGKTAIALAMSHE 32
R IL+ GPPGTGK+ +A A++ E
Sbjct: 46 RGILLFGPPGTGKSYLAKAVATE 68
>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 = 37.3 bits (87), Expect = 0.006
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
IL+ GPPGTGK+ +A A++ E
Sbjct: 52 SGILLYGPPGTGKSYLAKAVATEAN 76
>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 = 36.1 bits (83), Expect = 0.009
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 7 MAGRAILMAGPPGTGKTAIALAMSHELG 34
I++ G P TGKT ++ A++ L
Sbjct: 3 QTPALIIVTGHPATGKTTLSQALATGLR 30
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 36.4 bits (85), Expect = 0.011
Identities = 23/62 (37%), Positives = 34/62 (54%), Gaps = 13/62 (20%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG-NKVPFCPMVGSEVFS-----SEIKKTEVLMENFR 63
+L+AGPPG GKT +A A+++E G N F + G E+ + SE +V F+
Sbjct: 45 AGVLLAGPPGCGKTLLAKAVANESGLN---FISVKGPELLNMYVGESERAVRQV----FQ 97
Query: 64 RA 65
RA
Sbjct: 98 RA 99
>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 = 34.7 bits (80), Expect = 0.023
Identities = 9/29 (31%), Positives = 14/29 (48%)
Query: 5 KKMAGRAILMAGPPGTGKTAIALAMSHEL 33
G+ + G PG GKT +A+A +
Sbjct: 34 NPEEGKGLTFVGSPGVGKTHLAVATLKAI 62
>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 = 34.6 bits (79), Expect = 0.024
Identities = 14/88 (15%), Positives = 30/88 (34%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLME 60
+ + M IL+ G PG GKT + ++ + G K + E + E
Sbjct: 3 LGSPEFMLLPNILLTGTPGVGKTTLGKELASKSGLKYINVGDLAREEQLYDGYDEEYDCP 62
Query: 61 NFRRAIGLRIKESKEVYEGEVTELTPVE 88
+ +++ G + + +
Sbjct: 63 ILDEDRVVDELDNQMREGGVIVDYHGCD 90
>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 = 35.5 bits (81), Expect = 0.029
Identities = 8/38 (21%), Positives = 14/38 (36%)
Query: 2 IKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPF 39
+++ + G PGTGKT + +K
Sbjct: 37 LRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTA 74
Score = 33.6 bits (76), Expect = 0.12
Identities = 25/157 (15%), Positives = 53/157 (33%), Gaps = 28/157 (17%)
Query: 244 VLFIDEVHMLDLETFMPHLETFTYLHRALESAIAP--IVIFATNRGRCLVRGTDDIISPH 301
L +D+ L + L TF L + + A ++ + + +
Sbjct: 128 FLVLDDAFNLAPDI----LSTFIRLGQEADKLGAFRIALVIVGH----------NDAVLN 173
Query: 302 GIPLDLLDRLLIIRTT--PYNQKDMEAIIKLRANTEGH--VLDDEALVTLSEI------- 350
+ + PY + + I+ RA ++ L +++I
Sbjct: 174 NLDPSTRGIMGKYVIRFSPYTKDQIFDILLDRAKAGLAEGSYSEDILQMIADITGAQTPL 233
Query: 351 -GTRSTLRYVVQLLTPAALTAKTNGRTAISKQDILEV 386
R R + +L +A A+ NGR I+ +D+ +
Sbjct: 234 DTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKS 270
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 34.8 bits (80), Expect = 0.036
Identities = 10/32 (31%), Positives = 16/32 (50%)
Query: 5 KKMAGRAILMAGPPGTGKTAIALAMSHELGNK 36
+ + + G G GK+ + AM+HEL K
Sbjct: 148 PSAEQKGLYLYGDMGIGKSYLLAAMAHELSEK 179
>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta
protein., structural genomics, PSI-2, protein structure
initiative; HET: G3D; 2.20A {Bacillus subtilis} PDB:
2axp_A*
Length = 173
Score = 33.9 bits (78), Expect = 0.037
Identities = 19/76 (25%), Positives = 28/76 (36%), Gaps = 11/76 (14%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFR------RA 65
I++ GP K+ +A +S EL P++ F E L E+F
Sbjct: 4 IILEGPDCCFKSTVAAKLSKELK-----YPIIKGSSFELAKSGNEKLFEHFNKLADEDNV 58
Query: 66 IGLRIKESKEVYEGEV 81
I R S VY +
Sbjct: 59 IIDRFVYSNLVYAKKF 74
>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 = 34.7 bits (80), Expect = 0.051
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNK 36
+L GPPGTGKT+ +A++ E+ K
Sbjct: 49 LLFYGPPGTGKTSTIVALAREIYGK 73
Score = 31.2 bits (71), Expect = 0.57
Identities = 20/91 (21%), Positives = 29/91 (31%), Gaps = 7/91 (7%)
Query: 297 IISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTL 356
+ LL + R P Q+ +E I E L A L E+ + +
Sbjct: 153 LTPA------LLSQCTRFRFQPLPQEAIERRIANVLVHEKLKLSPNAEKALIEL-SNGDM 205
Query: 357 RYVVQLLTPAALTAKTNGRTAISKQDILEVS 387
R V+ +L T IS I E
Sbjct: 206 RRVLNVLQSCKATLDNPDEDEISDDVIYECC 236
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 33.9 bits (78), Expect = 0.053
Identities = 8/26 (30%), Positives = 15/26 (57%)
Query: 8 AGRAILMAGPPGTGKTAIALAMSHEL 33
+ + + G G GKT + A+++EL
Sbjct: 53 KMKGLYLHGSFGVGKTYLLAAIANEL 78
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 34.3 bits (78), Expect = 0.066
Identities = 12/83 (14%), Positives = 31/83 (37%), Gaps = 1/83 (1%)
Query: 3 KSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVP-FCPMVGSEVFSSEIKKTEVLMEN 61
+ + +++ G PG+GK+ IA + + K F + + ++ K V + +
Sbjct: 18 RIEDNYRVCVILVGSPGSGKSTIAEELCQIINEKYHTFLSEHPNVIEVNDRLKPMVNLVD 77
Query: 62 FRRAIGLRIKESKEVYEGEVTEL 84
+ + +G +
Sbjct: 78 SLKTLQPNKVAEMIENQGLFKDH 100
>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 = 34.1 bits (79), Expect = 0.072
Identities = 14/36 (38%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 2 IKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELG 34
+++ K +L+ GPPG GKT +A ++HELG
Sbjct: 28 LEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELG 63
Score = 27.5 bits (62), Expect = 7.7
Identities = 35/137 (25%), Positives = 51/137 (37%), Gaps = 44/137 (32%)
Query: 239 ELVPG-VLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVI---------------F 282
L G +LFIDE+H L E +L+ A+E + IVI F
Sbjct: 87 SLEEGDILFIDEIHRLS-----RQAE--EHLYPAMEDFVMDIVIGQGPAARTIRLELPRF 139
Query: 283 ----ATNRGRCLVRGTDDIISPHGIPLDLLDRLLII-RTTPYNQKDMEAIIKLRANTEGH 337
AT R + +P LL R I+ Y +++ + A G
Sbjct: 140 TLIGATTRPGLIT-------AP------LLSRFGIVEHLEYYTPEELAQGVMRDARLLGV 186
Query: 338 VLDDEALVTLSEIGTRS 354
+ +EA + EIG RS
Sbjct: 187 RITEEAAL---EIGRRS 200
>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 = 34.1 bits (78), Expect = 0.077
Identities = 12/47 (25%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL-GNKVPFCPMVGSEVFSSEIKKTEV 57
+L+ GP GTGK +A+ + G V + + ++ +K E+
Sbjct: 39 LLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLEL 85
>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 = 33.7 bits (78), Expect = 0.081
Identities = 15/36 (41%), Positives = 23/36 (63%), Gaps = 3/36 (8%)
Query: 2 IKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELG 34
+++ KM G +L+AGPPG GKT +A ++ EL
Sbjct: 41 LEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQ 76
Score = 27.9 bits (63), Expect = 6.2
Identities = 38/137 (27%), Positives = 50/137 (36%), Gaps = 44/137 (32%)
Query: 239 ELVPG-VLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPIVI---------------F 282
L G VLFIDE+H L+ +E L+ A+E I+I F
Sbjct: 99 SLERGDVLFIDEIHRLN-----KAVE--ELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPF 151
Query: 283 ----ATNRGRCLVRGTDDIISPHGIPLDLLDRLLII-RTTPYNQKDMEAIIKLRANTEGH 337
AT R L SP L R II Y K+++ IIK A+
Sbjct: 152 TLVGATTRSGLLS-------SP------LRSRFGIILELDFYTVKELKEIIKRAASLMDV 198
Query: 338 VLDDEALVTLSEIGTRS 354
++D A I RS
Sbjct: 199 EIEDAAAE---MIAKRS 212
>1nlf_A Regulatory protein REPA; replicative DNA helicase structural
changes, replication; 1.95A {Escherichia coli} SCOP:
c.37.1.11 PDB: 1g8y_A 1olo_A
Length = 279
Score = 33.5 bits (76), Expect = 0.084
Identities = 14/68 (20%), Positives = 27/68 (39%), Gaps = 10/68 (14%)
Query: 7 MAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLM---ENFR 63
+AG + P G GK+ +AL ++ ++ + E+ V+ E+
Sbjct: 28 VAGTVGALVSPGGAGKSMLALQLAAQIAGGPDLLEV-------GELPTGPVIYLPAEDPP 80
Query: 64 RAIGLRIK 71
AI R+
Sbjct: 81 TAIHHRLH 88
>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 = 0.086
Identities = 13/22 (59%), Positives = 17/22 (77%)
Query: 12 ILMAGPPGTGKTAIALAMSHEL 33
+L GPPGTGKT+ LA++ EL
Sbjct: 61 MLFYGPPGTGKTSTILALTKEL 82
Score = 30.6 bits (69), Expect = 0.99
Identities = 18/92 (19%), Positives = 33/92 (35%), Gaps = 8/92 (8%)
Query: 297 IISPHGIPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTL 356
II P L + R + + ++ + E DD L + +I L
Sbjct: 176 IIDP------LASQCSKFRFKALDASNAIDRLRFISEQENVKCDDGVLERILDISAGD-L 228
Query: 357 RYVVQLLTPAALTAK-TNGRTAISKQDILEVS 387
R + LL A+ A+ I+ + E++
Sbjct: 229 RRGITLLQSASKGAQYLGDGKNITSTQVEELA 260
>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 = 33.9 bits (77), Expect = 0.089
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKV 37
R L GP +GKT +A A+ G K
Sbjct: 170 RYWLFKGPIDSGKTTLAAALLELCGGKA 197
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 33.7 bits (78), Expect = 0.092
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 3/36 (8%)
Query: 2 IKSKKMAGRA---ILMAGPPGTGKTAIALAMSHELG 34
I + K IL +GP G GKT +A +S+E+
Sbjct: 45 IAAAKKRNECLDHILFSGPAGLGKTTLANIISYEMS 80
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 33.5 bits (77), Expect = 0.094
Identities = 8/26 (30%), Positives = 12/26 (46%)
Query: 8 AGRAILMAGPPGTGKTAIALAMSHEL 33
+L++G PGTGKT +
Sbjct: 22 ERNVVLLSGGPGTGKTIFSQQFLWNG 47
>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 = 33.9 bits (77), Expect = 0.099
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKV 37
I + G GTGKTA+ + +L K
Sbjct: 45 PNNIFIYGLTGTGKTAVVKFVLSKLHKKF 73
Score = 33.1 bits (75), Expect = 0.15
Identities = 16/74 (21%), Positives = 31/74 (41%), Gaps = 4/74 (5%)
Query: 317 TPYNQKDMEAIIKLRANT--EGHVLDDEALVTLSEIGTRST--LRYVVQLLTPAALTAKT 372
PYN +++E I+ RA + VL D + + + R R + LL + A+
Sbjct: 195 PPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALAAREHGDARRALDLLRVSGEIAER 254
Query: 373 NGRTAISKQDILEV 386
T + ++ +
Sbjct: 255 MKDTKVKEEYVYMA 268
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus
P2}
Length = 235
Score = 33.1 bits (76), Expect = 0.11
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 8 AGRAILMAGPPGTGKTAIALAMSHEL 33
G I + G PGTGKT +L +
Sbjct: 22 QGFFIALTGEPGTGKTIFSLHFIAKG 47
>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 = 33.5 bits (77), Expect = 0.12
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 12 ILMAGPPGTGKTAIALAMSHELG 34
++++G PG GKT ++HEL
Sbjct: 45 MIISGMPGIGKTTSVHCLAHELL 67
>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 = 32.6 bits (74), Expect = 0.13
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKV 37
++ GP G GK+ ++ +L N
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQLDNSA 30
>1a5t_A Delta prime, HOLB; zinc finger, DNA replication; 2.20A
{Escherichia coli K12} SCOP: a.80.1.1 c.37.1.20 PDB:
1jr3_E* 1xxh_E* 1xxi_E* 3glf_E* 3glg_E* 3glh_E* 3gli_E*
Length = 334
Score = 33.2 bits (76), Expect = 0.14
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 11 AILMAGPPGTGKTAIALAMSHEL 33
A+L+ PG G A+ A+S L
Sbjct: 26 ALLIQALPGMGDDALIYALSRYL 48
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 33.3 bits (77), Expect = 0.15
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 16 GPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFS--SEIKK 54
GPPGTGKT +A ++ + S V S EI++
Sbjct: 57 GPPGTGKTTLAEVIARYAN--ADVERI--SAVTSGVKEIRE 93
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 32.8 bits (74), Expect = 0.18
Identities = 19/62 (30%), Positives = 28/62 (45%), Gaps = 6/62 (9%)
Query: 12 ILMAGPPGTGKTAIALAMS---HELG--NKVPFCPMVGSEVFSSEIKKTEVLMEN-FRRA 65
+ G PGTGKT +AL M+ H LG K + ++ I T + +RA
Sbjct: 70 MSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRA 129
Query: 66 IG 67
+G
Sbjct: 130 MG 131
Score = 27.8 bits (61), Expect = 6.8
Identities = 26/154 (16%), Positives = 51/154 (33%), Gaps = 11/154 (7%)
Query: 201 DILSMVGQLIKSKKTEIT-DKLRKEINKVVNKYIDQGIAELVPGVLFIDEVHMLDLETFM 259
+L +G + K +T D L + + + + GVLFIDE + L
Sbjct: 89 GLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAMGGVLFIDEAYYLYRPDNE 148
Query: 260 PH--LETFTYLHRALESAIAPIVIFATNRGRCLVRGTDDIISPHGIPLDLLDRL-LIIRT 316
E L + +E+ +V+ D + + R+ I
Sbjct: 149 RDYGQEAIEILLQVMENNRDDLVVILAGY-------ADRMENFFQSNPGFRSRIAHHIEF 201
Query: 317 TPYNQKDMEAIIKLRANTEGHVLDDEALVTLSEI 350
Y+ +++ I + + + + EA L
Sbjct: 202 PDYSDEELFEIAGHMLDDQNYQMTPEAETALRAY 235
>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 = 32.6 bits (74), Expect = 0.18
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKV 37
+ GPP TGK+ + ++ H LG V
Sbjct: 127 NCLAFIGPPNTGKSMLCNSLIHFLGGSV 154
>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 = 0.18
Identities = 7/31 (22%), Positives = 18/31 (58%)
Query: 4 SKKMAGRAILMAGPPGTGKTAIALAMSHELG 34
+ + +I++ G G+GK+++ A++ G
Sbjct: 13 AVRRFPGSIVVMGVSGSGKSSVGEAIAEACG 43
>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 = 32.8 bits (74), Expect = 0.19
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHEL 33
+ L G GTGKT ++ + +E+
Sbjct: 45 KFSNLFLGLTGTGKTFVSKYIFNEI 69
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase,
HEL helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 32.6 bits (73), Expect = 0.19
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKV 37
AIL+ G G GKT I E +
Sbjct: 33 IAILLGGQSGAGKTTIHRIKQKEFQGNI 60
>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 = 32.5 bits (74), Expect = 0.21
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
IL+ GPPGTGK+ +A A++ E
Sbjct: 85 SGILLYGPPGTGKSYLAKAVATEAN 109
>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 = 32.4 bits (74), Expect = 0.26
Identities = 33/188 (17%), Positives = 67/188 (35%), Gaps = 49/188 (26%)
Query: 243 GVLFIDEVHMLD---LETFMPHLET-FTYLHRALESAIAP---IVIFATNRGRCLVRGTD 295
G L+IDE ++L+ ++ + ++ + R S P +++ + N +R
Sbjct: 146 GYLYIDECNLLEDHIVDLLLDVAQSGENVVERDGLSIRHPARFVLVGSGNPEEGDLRP-- 203
Query: 296 DIISPHGIPLDLLDRL-LIIRTTPYNQKDM--------------------EAIIKLRANT 334
++ G+ +++L + R ++D I++ R
Sbjct: 204 QLLDRFGLSVEVLSPRDVETRVEVIRRRDTYDADPKAFLEEWRPKDMDIRNQILEARERL 263
Query: 335 EGHVLDDEALVTLSEI-------GTRSTLRYVVQLL----TPAALTAKTNGRTAISKQDI 383
+ AL + + G R L LL AAL G TA+ + +
Sbjct: 264 PKVEAPNTALYDCAALCIALGSDGLRGELT----LLRSARALAAL----EGATAVGRDHL 315
Query: 384 LEVSTLFL 391
V+T+ L
Sbjct: 316 KRVATMAL 323
Score = 29.4 bits (66), Expect = 2.0
Identities = 6/15 (40%), Positives = 9/15 (60%)
Query: 12 ILMAGPPGTGKTAIA 26
+L+ G GTGK+
Sbjct: 48 VLVFGDRGTGKSTAV 62
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 32.2 bits (73), Expect = 0.26
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 8 AGRAILMAGPPGTGKTAIAL 27
G +L+ G GTGKT A
Sbjct: 29 EGTTVLLTGGTGTGKTTFAA 48
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 32.2 bits (73), Expect = 0.28
Identities = 8/25 (32%), Positives = 9/25 (36%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHEL 33
IL G GTGKT +
Sbjct: 281 DSIILATGATGTGKTLLVSRFVENA 305
Score = 31.8 bits (72), Expect = 0.38
Identities = 9/20 (45%), Positives = 14/20 (70%)
Query: 8 AGRAILMAGPPGTGKTAIAL 27
GR+ L++G GTGKT ++
Sbjct: 38 IGRSTLVSGTSGTGKTLFSI 57
>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 = 32.2 bits (73), Expect = 0.31
Identities = 14/26 (53%), Positives = 19/26 (73%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGN 35
R IL+ GPPGTGK+ +A A++ E N
Sbjct: 168 RGILLFGPPGTGKSYLAKAVATEANN 193
>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 = 31.4 bits (72), Expect = 0.39
Identities = 26/102 (25%), Positives = 38/102 (37%), Gaps = 27/102 (26%)
Query: 247 IDEVHMLDLETFMPHLETFTYLHRALESAIAP----IVIFATNRGRCLVRGTDDIISPHG 302
IDEVHML +F L+T LE P + AT TD P
Sbjct: 132 IDEVHMLSRHSFNALLKT-------LEE---PPEHVKFLLAT---------TD----PQK 168
Query: 303 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEAL 344
+P+ +L R L + + + ++ N E + AL
Sbjct: 169 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRAL 210
>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 = 30.8 bits (69), Expect = 0.48
Identities = 8/31 (25%), Positives = 17/31 (54%)
Query: 4 SKKMAGRAILMAGPPGTGKTAIALAMSHELG 34
+ ++ G G+GK+A+A ++H+L
Sbjct: 3 TTNHDHHIYVLMGVSGSGKSAVASEVAHQLH 33
>1nrj_B SR-beta, signal recognition particle receptor beta subunit;
transmembrane, endoplasmic reticulum, GTP-binding; HET:
GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8
Length = 218
Score = 30.5 bits (69), Expect = 0.70
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAI 25
M +K +I++AGP +GKT++
Sbjct: 4 MGIKQKSYQPSIIIAGPQNSGKTSL 28
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman
fold, hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 30.9 bits (70), Expect = 0.79
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 7 MAGRAILMAGPPGTGKTAIALAMSHELGN 35
++G ++ + GPPG K+ IA + N
Sbjct: 39 LSGESVFLLGPPGIAKSLIARRLKFAFQN 67
>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding,
nucleotide-binding, nucleotidyltransferase, tRNA
processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A
3crr_A
Length = 323
Score = 30.6 bits (70), Expect = 0.80
Identities = 11/30 (36%), Positives = 17/30 (56%), Gaps = 2/30 (6%)
Query: 7 MAGR--AILMAGPPGTGKTAIALAMSHELG 34
M+ AI + GP GKT +A+A++ L
Sbjct: 1 MSSLPPAIFLMGPTAAGKTDLAMALADALP 30
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 30.7 bits (69), Expect = 0.83
Identities = 11/39 (28%), Positives = 17/39 (43%)
Query: 8 AGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSE 46
G+ +L+ PG GKT + +L KV S+
Sbjct: 25 HGKTLLLNAKPGLGKTVFVEVLGMQLKKKVLIFTRTHSQ 63
>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside
modification, isopentenyl-tRNA transferase,
transferase-RNA complex; 2.50A {Escherichia coli k-12}
PDB: 2zxu_A* 2zm5_A
Length = 316
Score = 30.6 bits (70), Expect = 0.85
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
+AI + GP +GKTA+A+ + L
Sbjct: 11 KAIFLMGPTASGKTALAIELRKILP 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 = 30.2 bits (69), Expect = 0.90
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKV 37
G + GP +GKT +AL G KV
Sbjct: 20 GVLTQVYGPYASGKTTLALQTGLLSGKKV 48
>1u0j_A DNA replication protein; AAA+ protein, P-loop atpases, helicase;
HET: DNA ADP; 2.10A {Adeno-associated virus - 2} SCOP:
c.37.1.20 PDB: 1s9h_A
Length = 267
Score = 30.3 bits (68), Expect = 0.90
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 10/68 (14%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKV---------PFCPMVGSEV-FSSEIKKTEVLM 59
I + GP TGKT IA A++H + PF V V + E K T ++
Sbjct: 105 NTIWLFGPATTGKTNIAEAIAHTVPFYGCVNWTNENFPFNDCVDKMVIWWEEGKMTAKVV 164
Query: 60 ENFRRAIG 67
E+ + +G
Sbjct: 165 ESAKAILG 172
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer
aging, hydrolase; HET: FLC; 2.00A {Sulfolobus
acidocaldarius} PDB: 3crw_1*
Length = 551
Score = 30.8 bits (69), Expect = 1.0
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 2/50 (4%)
Query: 8 AGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEV--FSSEIKKT 55
+ + P G+GKT +L +S E+ KV F +E ++ K
Sbjct: 21 NNFLVALNAPTGSGKTLFSLLVSLEVKPKVLFVVRTHNEFYPIYRDLTKI 70
>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR
complex, HMR, HML, TELO AAA+ domain, structural,
nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}
Length = 318
Score = 30.3 bits (67), Expect = 1.1
Identities = 3/29 (10%), Positives = 8/29 (27%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKV 37
+ + + K + + EL
Sbjct: 45 NKLFYITNADDSTKFQLVNDVMDELITSS 73
>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 = 29.8 bits (67), Expect = 1.2
Identities = 7/28 (25%), Positives = 13/28 (46%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKV 37
++ GP TGK+ ++ H + V
Sbjct: 59 NCLVFCGPANTGKSYFGMSFIHFIQGAV 86
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme
function initiative, EFI, STRU genomics, transferase;
1.60A {Janibacter SP}
Length = 200
Score = 29.7 bits (66), Expect = 1.3
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 8 AGRAILMAGPPGTGKTAIALAMSHEL 33
R +++ G G+GKT IA ++ E
Sbjct: 28 PTRHVVVMGVSGSGKTTIAHGVADET 53
>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and
beta protein; HET: GSP; 1.90A {Methanocaldococcus
jannaschii} PDB: 2hf8_A*
Length = 226
Score = 29.9 bits (68), Expect = 1.3
Identities = 8/31 (25%), Positives = 13/31 (41%)
Query: 14 MAGPPGTGKTAIALAMSHELGNKVPFCPMVG 44
G G+GKT + + L +K + G
Sbjct: 43 FMGAIGSGKTLLIEKLIDNLKDKYKIACIAG 73
>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid
biosynthesis, P-loop kinase, metal- binding, shikimate
pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis}
SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A*
2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A*
1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A*
3baf_A*
Length = 184
Score = 29.5 bits (67), Expect = 1.3
Identities = 9/31 (29%), Positives = 15/31 (48%), Gaps = 2/31 (6%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKVPF 39
++ G PG+GK+ I ++ LG V
Sbjct: 2 APKAVLVGLPGSGKSTIGRRLAKALG--VGL 30
>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta
protein, structural genomics, PSI-2, protein structure
initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A
Length = 322
Score = 29.8 bits (68), Expect = 1.4
Identities = 7/28 (25%), Positives = 14/28 (50%)
Query: 7 MAGRAILMAGPPGTGKTAIALAMSHELG 34
M + + + GP GKT ++ ++ L
Sbjct: 1 MKEKLVAIVGPTAVGKTKTSVMLAKRLN 28
>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding
protein; 2.30A {Archaeoglobus fulgidus}
Length = 221
Score = 29.5 bits (67), Expect = 1.6
Identities = 10/29 (34%), Positives = 15/29 (51%)
Query: 16 GPPGTGKTAIALAMSHELGNKVPFCPMVG 44
G G+GKT + +GN+V M+G
Sbjct: 37 GAIGSGKTLLIERTIERIGNEVKIGAMLG 65
>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 = 29.2 bits (65), Expect = 1.6
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKV 37
I++ G PG GKT + + LG +
Sbjct: 3 IIITGEPGVGKTTLVKKIVERLGKRA 28
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 29.9 bits (66), Expect = 1.7
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 3 KSKKMAGRAILMAGPPGTGKTAIAL 27
++ M + I +GP +GKT A+
Sbjct: 149 DARAMQRKIIFHSGPTNSGKTYHAI 173
>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 = 29.3 bits (66), Expect = 1.8
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 4 SKKMAGRAILMAGPPGTGKTAI 25
++K + RA+L G +GKT +
Sbjct: 2 ARKSSQRAVLFVGLCDSGKTLL 23
>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 = 29.3 bits (65), Expect = 1.8
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 3/33 (9%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHEL 33
M + K + IL+ G PGTGKT++A ++ EL
Sbjct: 5 MEQPKGIN---ILITGTPGTGKTSMAEMIAAEL 34
>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 = 29.4 bits (66), Expect = 1.9
Identities = 12/61 (19%), Positives = 26/61 (42%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAIGLRIK 71
I++ G PG GK+ + ++ L ++GS++ + E F + R+
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDVIVLGSDLIRESFPVWKEKYEEFIKKSTYRLI 66
Query: 72 E 72
+
Sbjct: 67 D 67
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET:
ATP; 2.37A {Humulus lupulus}
Length = 339
Score = 29.5 bits (66), Expect = 2.0
Identities = 5/25 (20%), Positives = 15/25 (60%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
+ +++ G GTGK+ +++ ++
Sbjct: 41 KLLVLMGATGTGKSRLSIDLAAHFP 65
>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent
proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A*
1kyi_A* 1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E*
1hqy_E* 1ht1_E* 1ht2_E*
Length = 444
Score = 29.6 bits (67), Expect = 2.1
Identities = 11/15 (73%), Positives = 11/15 (73%)
Query: 12 ILMAGPPGTGKTAIA 26
ILM GP G GKT IA
Sbjct: 53 ILMIGPTGVGKTEIA 67
>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 = 29.2 bits (66), Expect = 2.3
Identities = 11/24 (45%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 12 ILMAGP-PGTGKTAIALAMSHELG 34
I++ P PGTGKT +A A+ H++
Sbjct: 50 IILHSPSPGTGKTTVAKALCHDVN 73
>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella
burnetii}
Length = 181
Score = 28.9 bits (64), Expect = 2.4
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 9 GRAILMAGPPGTGKTAIALAM 29
+L+ G GK+ ++LA+
Sbjct: 16 KMGVLITGEANIGKSELSLAL 36
>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 = 29.5 bits (66), Expect = 2.5
Identities = 8/18 (44%), Positives = 12/18 (66%)
Query: 9 GRAILMAGPPGTGKTAIA 26
R +++ GPPG+GKT
Sbjct: 1304 HRPLILCGPPGSGKTMTL 1321
>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 = 29.3 bits (65), Expect = 2.6
Identities = 8/31 (25%), Positives = 12/31 (38%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPFC 40
+ IL G PG+GK+ A +
Sbjct: 3 KIILTIGCPGSGKSTWAREFIAKNPGFYNIN 33
>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 = 29.1 bits (66), Expect = 2.6
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 2/28 (7%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPF 39
IL+ GP G+GKT +A ++ L VPF
Sbjct: 54 ILLIGPTGSGKTLLAETLARLL--DVPF 79
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 29.0 bits (65), Expect = 2.7
Identities = 10/29 (34%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKV 37
R ++ P G+GKT +A+A +EL
Sbjct: 109 KRGCIVL-PTGSGKTHVAMAAINELSTPT 136
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 28.8 bits (64), Expect = 2.7
Identities = 12/35 (34%), Positives = 14/35 (40%)
Query: 7 MAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCP 41
M I + GP G GKT A + L F P
Sbjct: 3 MRSPIIWINGPFGVGKTHTAHTLHERLPGSFVFEP 37
>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 = 2.7
Identities = 6/45 (13%), Positives = 12/45 (26%), Gaps = 8/45 (17%)
Query: 243 GVLFIDEVHMLDLETFMPHLETFTYLHRALESAIAPI-VIFATNR 286
G L + + E +L + P +I +
Sbjct: 78 GTLVLSHPE------HLT-REQQYHLVQLQSQEHRPFRLIGIGDT 115
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 28.7 bits (65), Expect = 2.8
Identities = 8/39 (20%), Positives = 14/39 (35%), Gaps = 6/39 (15%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPF 39
M K+ I + G G GKT++ ++
Sbjct: 1 MKKNLT----NIYLIGLMGAGKTSVGSQLAKLTK--RIL 33
>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 = 29.0 bits (66), Expect = 2.8
Identities = 14/33 (42%), Positives = 23/33 (69%)
Query: 4 SKKMAGRAILMAGPPGTGKTAIALAMSHELGNK 36
+K + G + +AGPPG GKT++A +++ LG K
Sbjct: 103 TKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRK 135
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 28.6 bits (64), Expect = 2.9
Identities = 8/17 (47%), Positives = 11/17 (64%)
Query: 10 RAILMAGPPGTGKTAIA 26
+ IL G PG+GK+ A
Sbjct: 3 KIILTIGCPGSGKSTWA 19
>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 = 28.5 bits (64), Expect = 3.0
Identities = 8/23 (34%), Positives = 15/23 (65%), Gaps = 3/23 (13%)
Query: 3 KSKKMAGRAILMAGPPGTGKTAI 25
S + + I++AGP +GKT++
Sbjct: 45 GSYQPS---IIIAGPQNSGKTSL 64
>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 = 29.1 bits (66), Expect = 3.0
Identities = 11/28 (39%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVPF 39
IL+ GP G+GKT +A ++ L +P
Sbjct: 75 ILLIGPTGSGKTLMAQTLAKHL--DIPI 100
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 28.7 bits (65), Expect = 4.0
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 12/32 (37%)
Query: 10 RAI--LMAGPP---------GTGKTA-IALAM 29
+A+ L++ PP GTGKTA AL M
Sbjct: 148 KALPLLLSNPPRNMIGQSQSGTGKTAAFALTM 179
>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 = 27.9 bits (63), Expect = 4.1
Identities = 9/30 (30%), Positives = 12/30 (40%), Gaps = 2/30 (6%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNKVPF 39
I M G G G T + ++ LG F
Sbjct: 3 EPIFMVGARGCGMTTVGRELARALG--YEF 30
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 28.4 bits (62), Expect = 4.5
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNK 36
A L+ G PG+GKT++ A+ E
Sbjct: 34 TAFLLGGQPGSGKTSLRSAIFEETQGN 60
>1ko7_A HPR kinase/phosphatase; protein kinase, phosphotransfer, protein
phosphatase, dual activity, product, substrate,
transferase, hydrolase; 1.95A {Staphylococcus xylosus}
SCOP: c.98.2.1 c.91.1.2
Length = 314
Score = 28.5 bits (63), Expect = 4.6
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 9 GRAILMAGPPGTGKTAIALAM 29
G +L+ G G GK+ AL +
Sbjct: 144 GVGVLITGDSGIGKSETALEL 164
>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase,
shikimat ATP binding, chloroplast, transferase; 2.35A
{Arabidopsis thaliana}
Length = 250
Score = 28.2 bits (63), Expect = 4.7
Identities = 11/36 (30%), Positives = 18/36 (50%), Gaps = 2/36 (5%)
Query: 4 SKKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPF 39
+ GR++ + G G+GKT + M+ LG F
Sbjct: 43 KPYLNGRSMYLVGMMGSGKTTVGKIMARSLG--YTF 76
>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding,
carbohydrate metabolism, magnesium, metal-binding,
multifunctional enzyme; 2.60A {Lactobacillus casei}
PDB: 1jb1_A 1kkl_A 1kkm_A*
Length = 205
Score = 28.1 bits (62), Expect = 4.8
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 9 GRAILMAGPPGTGKTAIALAM 29
G +L+ G G GK+ AL +
Sbjct: 34 GLGVLITGDSGVGKSETALEL 54
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann,
hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 27.8 bits (61), Expect = 4.9
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELGNK 36
R + + GPPG GKT + S L +
Sbjct: 2 RHVFLTGPPGVGKTTLIHKASEVLKSS 28
>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system
kinase, STRU genomics, joint center for structural
genomics, JCSG; 1.95A {Silicibacter SP}
Length = 208
Score = 27.8 bits (62), Expect = 5.0
Identities = 6/27 (22%), Positives = 16/27 (59%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVP 38
+ ++G PG+GK+ ++ ++ L +
Sbjct: 25 VALSGAPGSGKSTLSNPLAAALSAQGL 51
>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P;
2.25A {Thermus thermophilus} PDB: 3asy_A*
Length = 211
Score = 28.0 bits (63), Expect = 5.4
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKV 37
I +AG +GKT +A A++ LG +V
Sbjct: 9 IGIAGGTASGKTTLAQALARTLGERV 34
>1kht_A Adenylate kinase; phosphotransferase, signaling protein,
transferase; HET: AMP; 2.50A {Methanococcus voltae}
SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A
Length = 192
Score = 27.7 bits (61), Expect = 6.2
Identities = 16/86 (18%), Positives = 34/86 (39%)
Query: 7 MAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRRAI 66
M + +++ G PG G T + L + MV E+ K E L+ + +
Sbjct: 1 MKNKVVVVTGVPGVGSTTSSQLAMDNLRKEGVNYKMVSFGSVMFEVAKEENLVSDRDQMR 60
Query: 67 GLRIKESKEVYEGEVTELTPVETENP 92
+ + K + + ++ + E+P
Sbjct: 61 KMDPETQKRIQKMAGRKIAEMAKESP 86
>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 = 27.5 bits (62), Expect = 7.0
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 16 GPPGTGKTAIALAM 29
GP G+GKT +A+A
Sbjct: 29 GPAGSGKTYLAMAK 42
>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 = 27.7 bits (61), Expect = 7.2
Identities = 11/74 (14%), Positives = 26/74 (35%), Gaps = 2/74 (2%)
Query: 5 KKMAGRAILMAGPPGTGKTAIALAMSHELGNKVPFCPMVGSEVFSSEIKKTEVLMENFRR 64
K + L+ G TGK++I +EL + + + + + ++
Sbjct: 26 KGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDL--RKFEERNYISYKDFLLELQK 83
Query: 65 AIGLRIKESKEVYE 78
I +K + +
Sbjct: 84 EINKLVKRLPSLLK 97
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.2 bits (59), Expect = 7.3
Identities = 12/50 (24%), Positives = 16/50 (32%), Gaps = 29/50 (58%)
Query: 322 KDMEAIIKLRANTEGHVLDDEALVTLSEIGTRSTLRYVVQLLTPA-ALTA 370
K ++A +KL A DD A PA A+ A
Sbjct: 23 KKLQASLKLYA-------DDSA---------------------PALAIKA 44
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 27.9 bits (61), Expect = 7.3
Identities = 19/92 (20%), Positives = 35/92 (38%), Gaps = 14/92 (15%)
Query: 9 GRAILMAGPPGTGKTAIA-LAMSHEL-------GNKVPF-CPMVG-----SEVFSSEIKK 54
G+ ++ P G GKT ++ L H L KV F + + VFS ++
Sbjct: 19 GKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKVVFFANQIPVYEQQATVFSRYFER 78
Query: 55 TEVLMENFRRAIGLRIKESKEVYEGEVTELTP 86
+ + A + + + ++ LTP
Sbjct: 79 LGYNIASISGATSDSVSVQHIIEDNDIIILTP 110
>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 = 27.3 bits (61), Expect = 8.0
Identities = 10/29 (34%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKV 37
R ++ P G+GKT +A+A +EL
Sbjct: 109 KRGCIVL-PTGSGKTHVAMAAINELSTPT 136
>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta
protein, structural genomics, PSI-2; 2.70A
{Staphylococcus epidermidis atcc 12228}
Length = 340
Score = 27.5 bits (62), Expect = 8.3
Identities = 6/25 (24%), Positives = 15/25 (60%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
I++ GP +GKT +++ ++ +
Sbjct: 8 FLIVIVGPTASGKTELSIEVAKKFN 32
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 27.5 bits (60), Expect = 8.5
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 9 GRAILMAGPPGTGKTAIALAMSHELGNKVP 38
L+ G GTGKTA+A + L +
Sbjct: 44 PSNALLYGLTGTGKTAVARLVLRRLEARAS 73
>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 = 8.9
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 10 RAILMAGPPGTGKTAIALAMSHELG 34
L+ GP +GKT +A+ ++ E G
Sbjct: 2 LLHLIYGPTCSGKTDMAIQIAQETG 26
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10
PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 27.3 bits (60), Expect = 9.0
Identities = 7/23 (30%), Positives = 10/23 (43%)
Query: 1 MIKSKKMAGRAILMAGPPGTGKT 23
MA ++ G G+GKT
Sbjct: 6 HHHHHGMASMIVVFVGTAGSGKT 28
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication,
DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 27.5 bits (60), Expect = 9.0
Identities = 9/23 (39%), Positives = 12/23 (52%), Gaps = 1/23 (4%)
Query: 12 ILMAGPPGTGKTAIA-LAMSHEL 33
L+ P G GKT IA + + L
Sbjct: 26 CLIVLPTGLGKTLIAMMIAEYRL 48
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 27.6 bits (61), Expect = 9.2
Identities = 12/38 (31%), Positives = 18/38 (47%), Gaps = 4/38 (10%)
Query: 7 MAGRAILMAGPPGTGKT----AIALAMSHELGNKVPFC 40
+ L+ GPPGTGKT I +S +++ C
Sbjct: 373 LQRPLSLIQGPPGTGKTVTSATIVYHLSKIHKDRILVC 410
>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 = 27.2 bits (61), Expect = 9.3
Identities = 11/27 (40%), Positives = 13/27 (48%)
Query: 12 ILMAGPPGTGKTAIALAMSHELGNKVP 38
ILM GP G GKT IA ++
Sbjct: 53 ILMIGPTGVGKTEIARRLAKLANAPFI 79
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 27.6 bits (60), Expect = 9.7
Identities = 12/42 (28%), Positives = 18/42 (42%), Gaps = 8/42 (19%)
Query: 7 MAGRAILMAGPPGTGKTAIA-LAMSHEL-------GNKVPFC 40
+ G+ L+ P G+GKT ++ L H KV F
Sbjct: 261 INGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFL 302
>1knx_A Probable HPR(Ser) kinase/phosphatase; HPR kinase, HPR
kinase/phosphatase, HPRK/P, P-loop, walker A BOX,
catabolite repression; 2.50A {Mycoplasma pneumoniae}
SCOP: c.98.2.1 c.91.1.2
Length = 312
Score = 27.2 bits (60), Expect = 9.7
Identities = 8/21 (38%), Positives = 12/21 (57%)
Query: 9 GRAILMAGPPGTGKTAIALAM 29
G +L+ G G GK+ AL +
Sbjct: 147 GVGVLLTGRSGIGKSECALDL 167
>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 = 27.2 bits (61), Expect = 9.9
Identities = 27/106 (25%), Positives = 40/106 (37%), Gaps = 27/106 (25%)
Query: 247 IDEVHMLDLETFMPHLETFTYLHRALESAIAP----IVIFATNRGRCLVRGTDDIISPHG 302
IDEVHML +F L+T LE P + AT TD P
Sbjct: 125 IDEVHMLSRHSFNALLKT-------LEE---PPEHVKFLLAT---------TD----PQK 161
Query: 303 IPLDLLDRLLIIRTTPYNQKDMEAIIKLRANTEGHVLDDEALVTLS 348
+P+ +L R L + + + ++ N E + AL L+
Sbjct: 162 LPVTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHEPRALQLLA 207
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
0.316 0.135 0.369
Gapped
Lambda K H
0.267 0.0529 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,114,811
Number of extensions: 391431
Number of successful extensions: 1376
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1363
Number of HSP's successfully gapped: 199
Length of query: 409
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 313
Effective length of database: 4,021,377
Effective search space: 1258691001
Effective search space used: 1258691001
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 (21.6 bits)
S2: 58 (26.6 bits)