RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2281
(287 letters)
>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 = 270 bits (693), Expect = 3e-90
Identities = 74/328 (22%), Positives = 124/328 (37%), Gaps = 56/328 (17%)
Query: 3 LWVDKYRPNNLQKLDFHCKQANHLRNLLKEGDFPHLLFYGPSGAGKKTRIMALLKELYGP 62
WV+KYRP NL ++ L+ LK + PH+LFYGP G GK + I+AL KELYGP
Sbjct: 26 PWVEKYRPKNLDEVTAQDHAVTVLKKTLKSANLPHMLFYGPPGTGKTSTILALTKELYGP 85
Query: 63 --------------------------------------------------VIILNETDHL 72
+IIL+E D +
Sbjct: 86 DLMKSRILELNASDERGISIVREKVKNFARLTVSKPSKHDLENYPCPPYKIIILDEADSM 145
Query: 73 TREAQQALRRTMEKYITTCRLILCANSMSQVIPAIRSRCLCIRIPAPTHEEIVSVLTNIC 132
T +AQ ALRRTME Y R L N ++++I + S+C R A + L I
Sbjct: 146 TADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCSKFRFKALDASNAIDRLRFIS 205
Query: 133 KKEGLTIPPEFALRLAQQSDRNLRRAILMCEASKVQQYPFQIDQQIVEPDWKIYI----R 188
++E + R+ S +LRR I + +++ + I +
Sbjct: 206 EQENVKCDDGVLERILDISAGDLRRGITLLQSASKGAQYLGDGKNITSTQVEELAGVVPH 265
Query: 189 DTAKLIISEQSPKKLLEVRTRLYELLVHSIPVNVLFKYLLEGLLAN--CDSDLKSKSIEM 246
D I+ + E++ + + + L E + N D++ K++ +
Sbjct: 266 DILIEIVEKVKSGDFDEIKKYVNTFMKSGWSAASVVNQLHEYYITNDNFDTNFKNQISWL 325
Query: 247 AAMFEHRIHKGSKPIFHIEAYVASFMAM 274
+ R++ G+ + + +
Sbjct: 326 LFTTDSRLNNGTNEHIQLLNLLVKISQL 353
>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 = 244 bits (625), Expect = 3e-80
Identities = 81/314 (25%), Positives = 132/314 (42%), Gaps = 43/314 (13%)
Query: 3 LWVDKYRPNNLQKLDFHCKQANHLRNLLKEGDFPHLLFYGPSGAGKKTRIMALLKELYGP 62
WV+KYRP L + L++ +K G PHLLF GP G GK T +AL +EL+G
Sbjct: 14 PWVEKYRPQRLDDIVGQEHIVKRLKHYVKTGSMPHLLFAGPPGVGKTTAALALARELFGE 73
Query: 63 ---------------------------------------VIILNETDHLTREAQQALRRT 83
+I L+E D LT++AQQALRRT
Sbjct: 74 NWRHNFLELNASDERGINVIREKVKEFARTKPIGGASFKIIFLDEADALTQDAQQALRRT 133
Query: 84 MEKYITTCRLILCANSMSQVIPAIRSRCLCIRIPAPTHEEIVSVLTNICKKEGLTIPPEF 143
ME + + R IL N S++I I+SRC R E+I L I + EGL + E
Sbjct: 134 MEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEGLELTEEG 193
Query: 144 ALRLAQQSDRNLRRAILMCEASKVQQYPFQIDQQIVEPDWKIYIRDTAKLIISEQSPKKL 203
+ ++ ++RRAI + +A+ I + V + + ++
Sbjct: 194 LQAILYIAEGDMRRAINILQAAAALDKK--ITDENVFMVASRARPEDIREMMLLALKGNF 251
Query: 204 LEVRTRLYELLV-HSIPVNVLFKYLLEGLL-ANCDSDLKSKSIEMAAMFEHRIHKGSKPI 261
L+ R +L E+L+ + + + + + + K + + R+ +G+ I
Sbjct: 252 LKAREKLREILLKQGLSGEDVLVQMHKEVFNLPIEEPKKVLLADKIGEYNFRLVEGANEI 311
Query: 262 FHIEAYVASFMAMY 275
+EA +A F +
Sbjct: 312 IQLEALLAQFTLIG 325
>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 = 233 bits (595), Expect = 2e-75
Identities = 85/216 (39%), Positives = 132/216 (61%), Gaps = 4/216 (1%)
Query: 63 VIILNETDHLTREAQQALRRTMEKYITTCRLILCANSMSQVIPAIRSRCLCIRIPAPTHE 122
+I+NE + LT++AQ ALRRTMEKY RLI+ +SMS +I I+S+CL IR PAP+
Sbjct: 137 CVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDS 196
Query: 123 EIVSVLTNICKKEGLTIPPEFAL-RLAQQSDRNLRRAILMCEASKVQ-QYPFQIDQQIVE 180
EI ++L+++ E + + + L R+AQ S+ NLR ++LM E+ + + + I++
Sbjct: 197 EISTILSDVVTNERIQLETKDILKRIAQASNGNLRVSLLMLESMALNNELALKSSSPIIK 256
Query: 181 PDWKIYIRDTAKLIISEQSPKKLLEVRTRLYELLVHSIPVNVLFKYLLEGLLA--NCDSD 238
PDW I I + I+ E+S L+E R LY+LL H IP N++ K L LL ++
Sbjct: 257 PDWIIVIHKLTRKIVKERSVNSLIECRAVLYDLLAHCIPANIILKELTFSLLDVETLNTT 316
Query: 239 LKSKSIEMAAMFEHRIHKGSKPIFHIEAYVASFMAM 274
KS IE +++F+ R+ G+K IFH+E ++A M
Sbjct: 317 NKSSIIEYSSVFDERLSLGNKAIFHLEGFIAKVMCC 352
Score = 90.7 bits (225), Expect = 3e-21
Identities = 36/74 (48%), Positives = 48/74 (64%), Gaps = 1/74 (1%)
Query: 1 MSLWVDKYRPNNLQKLDFHCKQANHLRNLLKEG-DFPHLLFYGPSGAGKKTRIMALLKEL 59
MSLWVDKYRP +L L + + N L++L + D PHLL YGP+G GKKTR MALL+ +
Sbjct: 1 MSLWVDKYRPKSLNALSHNEELTNFLKSLSDQPRDLPHLLLYGPNGTGKKTRCMALLESI 60
Query: 60 YGPVIILNETDHLT 73
+GP + + D
Sbjct: 61 FGPGVYRLKIDVRQ 74
>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 = 175 bits (447), Expect = 1e-53
Identities = 79/314 (25%), Positives = 128/314 (40%), Gaps = 43/314 (13%)
Query: 3 LWVDKYRPNNLQKLDFHCKQANHLRNLLKEGDFPHLLFYGPSGAGKKTRIMALLKELYGP 62
+WV+KYRP L ++ + L+ ++ + PHLLF GP G GK +AL ++L+G
Sbjct: 6 IWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGE 65
Query: 63 ---------------------------------------VIILNETDHLTREAQQALRRT 83
+I L+E D LT +AQ ALRRT
Sbjct: 66 NWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRT 125
Query: 84 MEKYITTCRLILCANSMSQVIPAIRSRCLCIRIPAPTHEEIVSVLTNICKKEGLTIPPEF 143
ME Y +CR IL N +S++I I+SRC R E + L IC+KEG+ I +
Sbjct: 126 MEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDG 185
Query: 144 ALRLAQQSDRNLRRAILMCEASKVQQYPFQIDQQIVEPDWKIYIRDTAKLIISEQSPKKL 203
L S + R+AI + + +D + + +I
Sbjct: 186 LEALIYISGGDFRKAINALQGAAAIGE--VVDADTIYQITATARPEEMTELIQTALKGNF 243
Query: 204 LEVRTRLYELLVHS-IPVNVLFKYLLEGLL-ANCDSDLKSKSIEMAAMFEHRIHKGSKPI 261
+E R L L+V + + L ++ LK + I+ + R+ +G+
Sbjct: 244 MEARELLDRLMVEYGMSGEDIVAQLFREIISMPIKDSLKVQLIDKLGEVDFRLTEGANER 303
Query: 262 FHIEAYVASFMAMY 275
++AY+A +
Sbjct: 304 IQLDAYLAYLSTLA 317
>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 = 167 bits (425), Expect = 5e-50
Identities = 72/318 (22%), Positives = 122/318 (38%), Gaps = 49/318 (15%)
Query: 3 LWVDKYRPNNLQKLDFHCKQANHLRNLLKEGDFPHLLFYGPSGAGKKTRIMALLKELYGP 62
WV+KYRP L ++ + +R + EG PHLLFYGP G GK + I+AL +E+YG
Sbjct: 14 PWVEKYRPETLDEVYGQNEVITTVRKFVDEGKLPHLLFYGPPGTGKTSTIVALAREIYGK 73
Query: 63 ---------------------------------------VIILNETDHLTREAQQALRRT 83
+IIL+E D +T AQ ALRR
Sbjct: 74 NYSNMVLELNASDDRGIDVVRNQIKDFASTRQIFSKGFKLIILDEADAMTNAAQNALRRV 133
Query: 84 MEKYITTCRLILCANSMSQVIPAIRSRCLCIRIPAPTHEEIVSVLTNICKKEGLTIPPEF 143
+E+Y R + AN ++ PA+ S+C R E I + N+ E L + P
Sbjct: 134 IERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLKLSPNA 193
Query: 144 ALRLAQQSDRNLRRAILMCEASKV---QQYPFQIDQQIVEPDWKIYIRDTAKLIISEQSP 200
L + S+ ++RR + + ++ K +I ++ K ++
Sbjct: 194 EKALIELSNGDMRRVLNVLQSCKATLDNPDEDEISDDVIYECCGAPRPSDLKAVLKSILE 253
Query: 201 KKLLEVRTRLYELLV---HSIP--VNVLFKYLLEGLLANCDSDLKSKSIEMAAMFEHRIH 255
L ++ ++ + + K L + + + + + A E+ I
Sbjct: 254 DDWGTAHYTLNKVRSAKGLALIDLIEGIVKILED--YELQNEETRVHLLTKLADIEYSIS 311
Query: 256 KGSKPIFHIEAYVASFMA 273
KG A + + A
Sbjct: 312 KGGNDQIQGSAVIGAIKA 329
>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 = 162 bits (411), Expect = 2e-49
Identities = 63/196 (32%), Positives = 90/196 (45%), Gaps = 39/196 (19%)
Query: 3 LWVDKYRPNNLQKLDFHCKQANHLRNLLKEGDFPHLLFYGPSGAGKKTRIMALLKELYGP 62
+WV+KYRP L ++ + L+ ++ + PHLLF GP G GK +AL ++L+G
Sbjct: 6 IWVEKYRPRTLDEVVGQDEVIQRLKGYVERKNIPHLLFSGPPGTGKTATAIALARDLFGE 65
Query: 63 ---------------------------------------VIILNETDHLTREAQQALRRT 83
+I L+E D LT +AQ ALRRT
Sbjct: 66 NWRDNFIEMNASDERGIDVVRHKIKEFARTAPIGGAPFKIIFLDEADALTADAQAALRRT 125
Query: 84 MEKYITTCRLILCANSMSQVIPAIRSRCLCIRIPAPTHEEIVSVLTNICKKEGLTIPPEF 143
ME Y +CR IL N +S++I I+SRC R E + L IC+KEG+ I +
Sbjct: 126 MEMYSKSCRFILSCNYVSRIIEPIQSRCAVFRFKPVPKEAMKKRLLEICEKEGVKITEDG 185
Query: 144 ALRLAQQSDRNLRRAI 159
L S + R+AI
Sbjct: 186 LEALIYISGGDFRKAI 201
>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 = 160 bits (407), Expect = 1e-47
Identities = 67/313 (21%), Positives = 129/313 (41%), Gaps = 44/313 (14%)
Query: 3 LWVDKYRPNNLQKLDFHCKQANHLRNLLKEGDFPHLLFYGPSGAGKKTRIMALLKELYGP 62
WV+KYRP L + + + + L+ + K+G+ PH++ G G GK T + L EL G
Sbjct: 10 PWVEKYRPQVLSDIVGNKETIDRLQQIAKDGNMPHMIISGMPGIGKTTSVHCLAHELLGR 69
Query: 63 ----------------------------------------VIILNETDHLTREAQQALRR 82
++IL+E D +T AQQALRR
Sbjct: 70 SYADGVLELNASDDRGIDVVRNQIKHFAQKKLHLPPGKHKIVILDEADSMTAGAQQALRR 129
Query: 83 TMEKYITTCRLILCANSMSQVIPAIRSRCLCIRIPAPTHEEIVSVLTNICKKEGLTIPPE 142
TME Y + R N +++I ++S+C +R + E+++ L I K E + +
Sbjct: 130 TMELYSNSTRFAFACNQSNKIIEPLQSQCAILRYSKLSDEDVLKRLLQIIKLEDVKYTND 189
Query: 143 FALRLAQQSDRNLRRAILMCEASKVQQYPFQIDQQIVEPDWKIYIRDTAKLIISEQSPKK 202
+ ++ ++R+AI +++ V + + + + K++++
Sbjct: 190 GLEAIIFTAEGDMRQAINNLQST-VAGHGLVNADNVFKIVDSPHPLIVKKMLLASNLEDS 248
Query: 203 LLEVRTRLYELLVHSI-PVNVLFKYLLEGLLANCDSDLKSKSIEMAAMFEHRIHKGSKPI 261
+ +RT L++ SI V F+ LA ++ + I+ + RI +G
Sbjct: 249 IQILRTDLWKKGYSSIDIVTTSFRVTKN--LAQVKESVRLEMIKEIGLTHMRILEGVGTY 306
Query: 262 FHIEAYVASFMAM 274
+ + +A +
Sbjct: 307 LQLASMLAKIHKL 319
>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 = 135 bits (343), Expect = 3e-38
Identities = 59/315 (18%), Positives = 116/315 (36%), Gaps = 54/315 (17%)
Query: 3 LWVDKYRPNNLQKLDFHCKQANHLRNLLKEGDFPHLLFYGPS-GAGKKTRIMALLKELYG 61
+ KYRP+ + + +++ +G PH++ + PS G GK T AL ++
Sbjct: 15 ILEQKYRPSTIDECILPAFDKETFKSITSKGKIPHIILHSPSPGTGKTTVAKALCHDVNA 74
Query: 62 P--------------------------------VIILNETDHL-TREAQQALRRTMEKYI 88
VI+++E D E+Q+ LR ME Y
Sbjct: 75 DMMFVNGSDCKIDFVRGPLTNFASAASFDGRQKVIVIDEFDRSGLAESQRHLRSFMEAYS 134
Query: 89 TTCRLILCANSMSQVIPAIRSRCLCIRIPAPTHEEIVSV-------LTNICKKEGLTIPP 141
+ C +I+ AN++ +I ++SRC I PT E+ + + LT ICK EG+ I
Sbjct: 135 SNCSIIITANNIDGIIKPLQSRCRVITFGQPTDEDKIEMMKQMIRRLTEICKHEGIAIAD 194
Query: 142 EFALR-LAQQSDRNLRRAILMCEASKVQQYPFQIDQQIVEP--DWKIYIRDTAKLIISEQ 198
+ L +++ + R+ I ++ + +D I+ + + I D + + +
Sbjct: 195 MKVVAALVKKNFPDFRKTIGELDSYSSK---GVLDAGILSLVTNDRGAIDDVLESLKN-- 249
Query: 199 SPKKLLEVRTRLYELLVHSIPVNVLFKYLLEGLLANCDSDLKSKSIEMAAMFEHRIHKGS 258
K + ++R + + L E + + + E+ +
Sbjct: 250 --KDVKQLRALAPKYAADY---SWFVGKLAEEIYSRVTPQSIIRMYEIVGENNQYHGIAA 304
Query: 259 KPIFHIEAYVASFMA 273
H+
Sbjct: 305 NTELHLAYLFIQLAC 319
>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 = 134 bits (339), Expect = 2e-36
Identities = 55/337 (16%), Positives = 97/337 (28%), Gaps = 83/337 (24%)
Query: 3 LWVDKYRPNNLQKLDFHCKQANHLRNLLKE-----------------GDFPHLLFYGPSG 45
LW KY P NLQ++ + L+N L G F + YGP G
Sbjct: 28 LWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPG 87
Query: 46 AGKKTRIMALLKELY--------------------------------------------- 60
GK T + +EL
Sbjct: 88 IGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNLNG 147
Query: 61 -GPVIILNETDHLTREAQQALRRTMEKYITTCRLILCA--NSMSQVIPAIRSRCLCIRIP 117
VII++E D ++ + + + + T ++ + CL I+
Sbjct: 148 KHFVIIMDEVDGMSGGDRGGVGQLAQFCRKTSTPLILICNERNLPKMRPFDRVCLDIQFR 207
Query: 118 APTHEEIVSVLTNICKKEGLTIPPEFALRLAQQSDRNLRRAILMCEASKVQQYPFQIDQ- 176
P I S L I +E + P RL Q + ++R+ I + +
Sbjct: 208 RPDANSIKSRLMTIAIREKFKLDPNVIDRLIQTTRGDIRQVINLLSTISTTTKTINHENI 267
Query: 177 ----QIVEPDWKIYIRDTAKLIISEQSPKKLLEVRTRLYELLVHS------IPVNVLFKY 226
+ E + + D A ++ Q + L + + P+ + Y
Sbjct: 268 NEISKAWEKNIALKPFDIAHKMLDGQIYSDIGSRNFTLNDKIALYFDDFDFTPLMIQENY 327
Query: 227 LLEGLLANCDSDLKSKSIEMAA-------MFEHRIHK 256
L +++ AA + E +I
Sbjct: 328 LSTRPSVLKPGQSHLEAVAEAANCISLGDIVEKKIRS 364
>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 = 64.5 bits (156), Expect = 9e-12
Identities = 62/398 (15%), Positives = 114/398 (28%), Gaps = 132/398 (33%)
Query: 3 LW--VDKYRPNNLQKLDFHCKQANHLRNLLKEGDFPHLLFYGPSGAGKKT---------- 50
L+ + N+ +L + K L L ++L G G+GK
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELRPA---KNVLIDGVLGSGKTWVALDVCLSYK 175
Query: 51 ---------------------RIMALLKELYGPVI--ILNETDHLTR------EAQQALR 81
++ +L++L + + +DH + Q LR
Sbjct: 176 VQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR 235
Query: 82 RTM-EKYITTCRLIL-------CANSM---SQVIPAIRSRCLCIRIPA--PTHEEIVSVL 128
R + K C L+L N+ +++ R + + + A TH +
Sbjct: 236 RLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHS 295
Query: 129 TNICKKEGLTIPPEFALRLAQQSDRNLRR--------AILMCEASKVQQYPFQIDQQIVE 180
+ E ++ L + L R + + A ++ D
Sbjct: 296 MTLTPDEVKSL---LLKYLDCRPQD-LPREVLTTNPRRLSII-AESIRDGLATWDN---- 346
Query: 181 PDWKIYIRDTAKLIISEQSPKKL--LEVRTRLYELL------VHSIPVNVLFKY------ 226
WK D II E S L E R ++++ L H IP +L
Sbjct: 347 --WKHVNCDKLTTII-ESSLNVLEPAEYR-KMFDRLSVFPPSAH-IPTILLSLIWFDVIK 401
Query: 227 -----LLEGL----LANCDS------------DLKSKSIEMAAMFEHRI----------- 254
++ L L +LK K A+ HR
Sbjct: 402 SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYAL--HRSIVDHYNIPKTF 459
Query: 255 HKGSKPIFHIEAYVASFMAMYLQFME-----DTLSNLF 287
+++ Y S + +L+ +E +F
Sbjct: 460 DSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF 497
Score = 36.0 bits (82), Expect = 0.014
Identities = 33/209 (15%), Positives = 69/209 (33%), Gaps = 53/209 (25%)
Query: 122 EEIVSVLTNICKKEGLTIPPE-------FALRLAQQSDRNLRRAILMCEASKVQQYPF-- 172
+ S+L+ + F L++Q +++ + E Y F
Sbjct: 40 DMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQE-EMVQKFV---EEVLRINYKFLM 95
Query: 173 -QIDQQIVEP--DWKIYIRDTAKLIISEQS--------PKKLLEVRTRLYEL------LV 215
I + +P ++YI +L Q + L++R L EL L+
Sbjct: 96 SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLI 155
Query: 216 H--------SIPVNVLFKYLLEGL---------LANCDSDLKSKSIEMAAMFEHRIHKGS 258
+ ++V Y ++ L NC+S +EM ++I
Sbjct: 156 DGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSP--ETVLEMLQKLLYQI---- 209
Query: 259 KPIFHIEAYVASFMAMYLQFMEDTLSNLF 287
P + + +S + + + ++ L L
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLL 238
>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 = 63.2 bits (154), Expect = 1e-11
Identities = 26/152 (17%), Positives = 53/152 (34%), Gaps = 15/152 (9%)
Query: 29 LLKEGDFPHLLFYGPSGAGKKTR---IMALLKELYGP-------VIILNETDHLTREAQQ 78
L++ G P P + + ++L V+ + + LT A
Sbjct: 67 LMQAGTHPDYYTLAPEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAAN 126
Query: 79 ALRRTMEKYITTCRLILCANSMSQVIPAIRSRCLCIRIPAPTHEEIVSVLTNICKKEGLT 138
AL +T+E+ L +++ +RSRC + P + V+ L +T
Sbjct: 127 ALLKTLEEPPAETWFFLATREPERLLATLRSRCRLHYLAPPPEQYAVTWL-----SREVT 181
Query: 139 IPPEFALRLAQQSDRNLRRAILMCEASKVQQY 170
+ + L + S + A+ + + Q
Sbjct: 182 MSQDALLAALRLSAGSPGAALALFQGDNWQAR 213
Score = 34.3 bits (79), Expect = 0.037
Identities = 11/36 (30%), Positives = 13/36 (36%), Gaps = 1/36 (2%)
Query: 25 HLRNLLKEGDFPH-LLFYGPSGAGKKTRIMALLKEL 59
L + G H LL G G I AL + L
Sbjct: 13 KLVASYQAGRGHHALLIQALPGMGDDALIYALSRYL 48
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 47.2 bits (112), Expect = 2e-06
Identities = 23/115 (20%), Positives = 45/115 (39%), Gaps = 14/115 (12%)
Query: 58 ELYGPVIILNETDHLTREAQQALRRTMEKYITTCRLILCANSMSQV-----------IPA 106
E+ V+ ++E L E+ L R +E + LI+ N IP
Sbjct: 187 EIIPGVLFIDEVHMLDIESFSFLNRALESDMAPV-LIMATNRGITRIRGTSYQSPHGIPI 245
Query: 107 -IRSRCLCIRIPAPTHEEIVSVLTNICKKEGLTIPPEFALRLAQQ-SDRNLRRAI 159
+ R L + + ++ +L C++E + + + L + + +LR AI
Sbjct: 246 DLLDRLLIVSTTPYSEKDTKQILRIRCEEEDVEMSEDAYTVLTRIGLETSLRYAI 300
>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 = 38.3 bits (90), Expect = 0.001
Identities = 53/222 (23%), Positives = 81/222 (36%), Gaps = 81/222 (36%)
Query: 7 KYRPNNLQKL--DFHCKQANHLRNLLKEGDFPH-LLFYGPSGAGKKT--RIM--AL---- 55
K+RP + H A L N L G H LF G G GK + R++ L
Sbjct: 16 KWRPQTFADVVGQEHVLTA--LANGLSLGRIHHAYLFSGTRGVGKTSIARLLAKGLNCET 73
Query: 56 -------------------------------------LKEL-----YGP------VIILN 67
++L Y P V +++
Sbjct: 74 GITATPCGVCDNCREIEQGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLID 133
Query: 68 ETDHLTREAQQALRRTME------KYI--TTCRLILCANSMSQVIPA-IRSRCLCIRIPA 118
E L+R + AL +T+E K++ TT Q +P I SRCL + A
Sbjct: 134 EVHMLSRHSFNALLKTLEEPPEHVKFLLATT---------DPQKLPVTILSRCLQFHLKA 184
Query: 119 PTHEEIVSVLTNICKKEGLTIPPEFALRL-AQQSDRNLRRAI 159
E+I L +I +E + P AL+L A+ ++ +LR A+
Sbjct: 185 LDVEQIRHQLEHILNEEHIAHEPR-ALQLLARAAEGSLRDAL 225
>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 = 38.0 bits (88), Expect = 0.002
Identities = 30/144 (20%), Positives = 52/144 (36%), Gaps = 26/144 (18%)
Query: 58 ELYGPVIILNETDHLTREAQQALRRTMEKYITTCRLILCANSMSQVIPAI---------- 107
EL V+ ++E L E L R +E I +I +N + VI
Sbjct: 293 ELVPGVLFVDEVHMLDIECFTYLHRALESSIAPI-VIFASNRGNCVIRGTEDITSPHGIP 351
Query: 108 ---RSRCLCIRIPAPTHEEIVSVLTNICKKEGLTIPPEFALRLAQQSDRN--------LR 156
R + IR T +E+ ++ + EG+ I E L + + L
Sbjct: 352 LDLLDRVMIIRTMLYTPQEMKQIIKIRAQTEGINISEEALNHLGEIGTKTTLRYSVQLLT 411
Query: 157 RAILMCEASKVQQYPFQIDQQIVE 180
A L+ + + I+++ VE
Sbjct: 412 PANLLAKINGKD----SIEKEHVE 431
Score = 31.1 bits (70), Expect = 0.43
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 21 KQANHLRNLLKEGDFP--HLLFYGPSGAGKKTRIMALLKEL 59
+ + L+K +L GP G GK +A+ +EL
Sbjct: 47 EACGVIVELIKSKKMAGRAVLLAGPPGTGKTALALAIAQEL 87
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 35.5 bits (81), Expect = 0.015
Identities = 33/166 (19%), Positives = 51/166 (30%), Gaps = 53/166 (31%)
Query: 37 HLLFYGPSGAGKKT--------------------------------------RIMALLKE 58
H+ F G G GK T + +LK
Sbjct: 69 HMSFTGNPGTGKTTVALKMAGLLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKR 128
Query: 59 LYGPVIILNETDHLTR---------EAQQALRRTMEKYITTCRLILCA-----NSMSQVI 104
G V+ ++E +L R EA + L + ME +IL + Q
Sbjct: 129 AMGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENNRDDLVVILAGYADRMENFFQSN 188
Query: 105 PAIRSR-CLCIRIPAPTHEEIVSVLTNICKKEGLTIPPEFALRLAQ 149
P RSR I P + EE+ + ++ + + PE L
Sbjct: 189 PGFRSRIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALRA 234
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 34.7 bits (80), Expect = 0.030
Identities = 25/201 (12%), Positives = 58/201 (28%), Gaps = 54/201 (26%)
Query: 61 GPVIILNETDHLTREAQQALRRTME---------------KYITT------CRLILCANS 99
V+ ++E L+ + QQ+L M+ + T L+ N
Sbjct: 202 KGVLFIDEIATLSLKMQQSLLTAMQEKKFPITGQSEMSSGAMVRTEPVPCDFVLVAAGNL 261
Query: 100 M-SQVIP-AIRSRCLCIRIPAPTHEEI----------VSVLTNICKKEGLTIP------- 140
+ A+RSR + V + K++G
Sbjct: 262 DTVDKMHPALRSRIRGYGYEVYMRTTMPDTIENRRKLVQFVAQEVKRDGKIPHFTKEAVE 321
Query: 141 --PEFALRLAQQSDR---NLRRAI-LMCEASKV--QQYPFQIDQQIVEPDWKIYIRDTAK 192
A + A + LR ++ A + ++ ++++ V + +
Sbjct: 322 EIVREAQKRAGRKGHLTLRLRDLGGIVRAAGDIAVKKGKKYVEREDVI--EAVKMAK--- 376
Query: 193 LIISEQSPKKLLEVRTRLYEL 213
+ +Q +E + +
Sbjct: 377 -PLEKQLADWYIERKKEYQVI 396
>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 = 34.5 bits (80), Expect = 0.035
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 9/61 (14%)
Query: 104 IPA-IRSRCLCI---RIPAPTHEEIVSVLTNICKKEGLTIPPEFALRL-AQQSDRNLRRA 158
+P I SRCL + E+I L +I +E + P AL+L A+ ++ +LR A
Sbjct: 162 LPVTILSRCLQFHLKALDV---EQIRHQLEHILNEEHIAHEPR-ALQLLARAAEGSLRDA 217
Query: 159 I 159
+
Sbjct: 218 L 218
>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 = 33.0 bits (74), Expect = 0.045
Identities = 12/49 (24%), Positives = 20/49 (40%), Gaps = 20/49 (40%)
Query: 197 EQSPKKLLEVRTRLYELLVHSIPVNVLFKYLLEGLLANCDSDLKSKSIE 245
+Q+ KKL + +LY S P LA +K+ ++E
Sbjct: 19 KQALKKL-QASLKLYA--DDSAPA-----------LA-----IKA-TME 47
Score = 29.9 bits (66), Expect = 0.56
Identities = 10/49 (20%), Positives = 14/49 (28%), Gaps = 22/49 (44%)
Query: 21 KQANHLRNLLKEGDFPHLLFYGPSGAGKKTRIMALLKELYGPVIILNET 69
KQA L+ L + L Y A P + + T
Sbjct: 19 KQA--LKKL--QAS---LKLYADDSA---------------PALAIKAT 45
Score = 28.0 bits (61), Expect = 2.2
Identities = 7/26 (26%), Positives = 12/26 (46%), Gaps = 3/26 (11%)
Query: 176 QQI--VEPDWKIYIRDTA-KLIISEQ 198
Q + ++ K+Y D+A L I
Sbjct: 20 QALKKLQASLKLYADDSAPALAIKAT 45
>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 = 0.047
Identities = 12/34 (35%), Positives = 16/34 (47%)
Query: 38 LLFYGPSGAGKKTRIMALLKELYGPVIILNETDH 71
LF GP +GK T ALL+ G + +N
Sbjct: 172 WLFKGPIDSGKTTLAAALLELCGGKALNVNLPLD 205
>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 = 34.3 bits (78), Expect = 0.052
Identities = 38/212 (17%), Positives = 64/212 (30%), Gaps = 78/212 (36%)
Query: 75 EAQQALRRT------MEKYIT------TCRLILCANSMSQVIPAIRSRCLCIRIPAPTHE 122
+A T +E + + L + + QV + +PA
Sbjct: 309 RCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNK--TNSHLPAGKQV 366
Query: 123 EIVSVLTNICKKEG-----LTIPPEFALR-LAQQSDRNLRRAILMCEASKVQQYPFQIDQ 176
EI L N G ++ PP+ +L L + LR+A K P +DQ
Sbjct: 367 EIS--LVN-----GAKNLVVSGPPQ-SLYGL----NLTLRKA-------KA---PSGLDQ 404
Query: 177 QIVEPDWKIYIRDTAKLIISEQSPKKLLEVRTR-LYELLVHSIPVNVLF--KYLLEGLLA 233
+++ SE+ K R L PV F L
Sbjct: 405 --------------SRIPFSERKLK----FSNRFL--------PVASPFHSHLL-VPASD 437
Query: 234 NCDSDLKSKSIEMAAMFEHRIHKGSKPIFHIE 265
+ DL ++ A + +I P++
Sbjct: 438 LINKDLVKNNVSFNAK-DIQI-----PVYDTF 463
Score = 32.3 bits (73), Expect = 0.20
Identities = 40/312 (12%), Positives = 84/312 (26%), Gaps = 135/312 (43%)
Query: 3 LW--VDKYRPNNLQKLDFHCKQANHLRNLLKEGDFPH---LLFYGPSGAGKKTRIMALLK 57
+W D + F + +++ + P + F G G + A++
Sbjct: 1645 VWNRADNHF---KDTYGFS------ILDIVI--NNPVNLTIHFGGEKGKRIRENYSAMIF 1693
Query: 58 ELY--GPVI---ILNETDH----LTREAQQ-ALRRTMEKYITTCRLILCANSMSQVIPAI 107
E G + I E + T +++ L T T Q PA+
Sbjct: 1694 ETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSAT---QFT------------Q--PAL 1736
Query: 108 RSRCLCIRIPAPTHEEIVSVLTNICKKEGLTIPP----------EF-------------- 143
+ A L K +GL IP E+
Sbjct: 1737 ----TLMEK-A-----AFEDL----KSKGL-IPADATFAGHSLGEYAALASLADVMSIES 1781
Query: 144 ALRLAQQSDRNLRRAILMCEASKVQQY-----------PFQIDQQIVEPDWKIYIRDTAK 192
+ + R + M A + P ++ + + +
Sbjct: 1782 LVEVVFY------RGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVER--- 1832
Query: 193 LIISEQSPKKLLEVRTRLYELLVHSIPVNVLFKYLLEG-------------LLANCDSDL 239
+ +++ L+E+ VN Y +E + N + +
Sbjct: 1833 --VGKRT-GWLVEI-------------VN----YNVENQQYVAAGDLRALDTVTNVLNFI 1872
Query: 240 KSKSIEMAAMFE 251
K + I++ + +
Sbjct: 1873 KLQKIDIIELQK 1884
Score = 27.7 bits (61), Expect = 5.1
Identities = 9/30 (30%), Positives = 15/30 (50%)
Query: 37 HLLFYGPSGAGKKTRIMALLKELYGPVIIL 66
H+L +GP GA + K+ G +I+
Sbjct: 500 HILDFGPGGASGLGVLTHRNKDGTGVRVIV 529
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 33.7 bits (78), Expect = 0.071
Identities = 9/31 (29%), Positives = 16/31 (51%), Gaps = 2/31 (6%)
Query: 26 LRNLLKEGDFPHLLFYGPSGAGKKT--RIMA 54
L ++ G ++ +GP G GK T ++A
Sbjct: 41 LPRAIEAGHLHSMILWGPPGTGKTTLAEVIA 71
Score = 29.4 bits (67), Expect = 1.5
Identities = 16/90 (17%), Positives = 34/90 (37%), Gaps = 12/90 (13%)
Query: 103 VIPAIRSRCLCIRIPAPTHEEIVSVLTN-------ICKKEGLTIPPEFALRLAQQSDRNL 155
+ A+ SR + + + E+I VLT + + +P E +A+ + +
Sbjct: 149 LNSALLSRARVYLLKSLSTEDIEQVLTQAMEDKTRGYGGQDIVLPDETRRAIAELVNGDA 208
Query: 156 RRAILMCE-----ASKVQQYPFQIDQQIVE 180
RRA+ E A + +++
Sbjct: 209 RRALNTLEMMADMAEVDDSGKRVLKPELLT 238
>3bos_A Putative DNA replication factor; P-loop containing nucleoside
triphosphate hydrolases, struct genomics; HET: MSE CDP;
1.75A {Shewanella amazonensis} PDB: 3sc3_A
Length = 242
Score = 32.6 bits (75), Expect = 0.094
Identities = 12/53 (22%), Positives = 22/53 (41%), Gaps = 3/53 (5%)
Query: 107 IRSR---CLCIRIPAPTHEEIVSVLTNICKKEGLTIPPEFALRLAQQSDRNLR 156
+ SR L ++ +E ++ L GL +P + L + R+LR
Sbjct: 159 LVSRMHWGLTYQLQPMMDDEKLAALQRRAAMRGLQLPEDVGRFLLNRMARDLR 211
>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 = 32.7 bits (74), Expect = 0.12
Identities = 19/129 (14%), Positives = 37/129 (28%), Gaps = 15/129 (11%)
Query: 37 HLLFYGPSGAGKKTRIMALLKELYGPVIILNETDHLTREAQQALRRTMEKYITTCRLI-- 94
+ P+G+GK + + E+ V+ + T + + L + EK T +
Sbjct: 24 LVALNAPTGSGKTLFSLLVSLEVKPKVLFVVRTHNEFYPIYRDLTKIREKRNITFSFLVG 83
Query: 95 ---LCANSMSQVIPAIRSRCLCIRIPAPTHEEI--------VSVLTNICKKEGLTIPPEF 143
C + C + E V L ++ P
Sbjct: 84 KPSSCLYAEKGAES-EDIPCKYCELKGSIVEVKTDDSPLSLVKKLKKDGLQDKF-CPYYS 141
Query: 144 ALRLAQQSD 152
L ++D
Sbjct: 142 LLNSLYKAD 150
>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 = 32.4 bits (73), Expect = 0.14
Identities = 10/37 (27%), Positives = 15/37 (40%)
Query: 23 ANHLRNLLKEGDFPHLLFYGPSGAGKKTRIMALLKEL 59
A +R +K LF G +G GK + E+
Sbjct: 33 AIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEI 69
>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA
translocation, nucleotide-binding, DNA-binding; 3.00A
{Bovine papillomavirus type 1} PDB: 2gxa_A*
Length = 305
Score = 31.8 bits (72), Expect = 0.19
Identities = 12/35 (34%), Positives = 15/35 (42%), Gaps = 1/35 (2%)
Query: 38 LLFYGPSGAGKKTRIMALLKELYGPVI-ILNETDH 71
L F GP GK +L+ L G V+ N H
Sbjct: 129 LAFIGPPNTGKSMLCNSLIHFLGGSVLSFANHKSH 163
>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 = 30.9 bits (70), Expect = 0.34
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 38 LLFYGPSGAGKKTRIMALLKELYGPVI-ILNETDH 71
L+F GP+ GK M+ + + G VI +N T H
Sbjct: 61 LVFCGPANTGKSYFGMSFIHFIQGAVISFVNSTSH 95
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 31.1 bits (70), Expect = 0.39
Identities = 18/120 (15%), Positives = 31/120 (25%), Gaps = 5/120 (4%)
Query: 37 HLLFYGPSGAGKKTRIMALLKELYGPVIILNETDHLTREAQQALRRTMEKYIT-TCRLIL 95
LL G GK + L +L V+I T + + K +
Sbjct: 28 TLLLNAKPGLGKTVFVEVLGMQLKKKVLIFTRTHSQLDSIYKNAKLLGLKTGFLIGKSAS 87
Query: 96 CANSMSQVIPAIRSRCLCI---RIPAPTHEEIVSVLTNICKKEGLTIPPEFALRLAQQSD 152
C + P + C +I +E ++ P + D
Sbjct: 88 CIYAQGDEEPDEINCSKCRLKDKIKTIEDKEPSKLIEEFKDAVDYC-PYYSLRANLKDKD 146
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 30.6 bits (70), Expect = 0.55
Identities = 13/35 (37%), Positives = 19/35 (54%), Gaps = 7/35 (20%)
Query: 37 HLLFYGPSGAGKKT--RIMAL-----LKELYGPVI 64
H+LF GP+G GK T I++ +K P+I
Sbjct: 57 HILFSGPAGLGKTTLANIISYEMSANIKTTAAPMI 91
>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 = 30.2 bits (69), Expect = 0.60
Identities = 14/35 (40%), Positives = 18/35 (51%), Gaps = 7/35 (20%)
Query: 37 HLLFYGPSGAGKKT--RIMAL-----LKELYGPVI 64
HLL +GP G GK T ++A L+ GP I
Sbjct: 40 HLLLFGPPGLGKTTLAHVIAHELGVNLRVTSGPAI 74
>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 = 30.5 bits (69), Expect = 0.61
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 38 LLFYGPSGAGKKTRIMALLKELYGPVIILNETDHLTR---EAQQALRRTMEK 86
+L YGP G GK A+ E ++N + +++ E++ LR+ E+
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEE 292
>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 = 30.2 bits (69), Expect = 0.70
Identities = 13/35 (37%), Positives = 17/35 (48%), Gaps = 7/35 (20%)
Query: 37 HLLFYGPSGAGKKT--RIMAL-----LKELYGPVI 64
H+L GP G GK T I+A + GPV+
Sbjct: 53 HVLLAGPPGLGKTTLAHIIASELQTNIHVTSGPVL 87
>2gno_A DNA polymerase III, gamma subunit-related protein; structural
genomics, joint center for structural genomics, J
protein structure initiative; HET: DNA; 2.00A
{Thermotoga maritima} SCOP: a.80.1.1 c.37.1.20
Length = 305
Score = 30.1 bits (68), Expect = 0.87
Identities = 20/149 (13%), Positives = 48/149 (32%), Gaps = 17/149 (11%)
Query: 103 VIPAIRSRCLCIRIPAP------THEEIVSVLTNICK-KEGLTIPPEFALRLAQQSDRNL 155
++P I+SR + + P E+I + + + E A +L + L
Sbjct: 125 LLPTIKSRVFRVVVNVPKEFRDLVKEKIGDLWEELPLLERDFKTALE-AYKLGAEKLSGL 183
Query: 156 RRAILMCEASKVQQYPFQIDQQIVEPDWKIYIRDTAKLIISEQSPKKLLEVRTRLYELLV 215
++ + E K+ + + + + S+ K+ + ++ +
Sbjct: 184 MESLKVLETEKL------LKKVLSKGLEGYLACRELLERFSKVESKEFFALFDQVTNTIT 237
Query: 216 HSIP---VNVLFKYLLEGLLANCDSDLKS 241
+ L + +L D KS
Sbjct: 238 GKDAFLLIQRLTRIILHENTWESVEDQKS 266
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 30.2 bits (67), Expect = 0.89
Identities = 11/37 (29%), Positives = 16/37 (43%)
Query: 23 ANHLRNLLKEGDFPHLLFYGPSGAGKKTRIMALLKEL 59
A L L+ + L YG +G GK +L+ L
Sbjct: 32 AEVLAPALRGEKPSNALLYGLTGTGKTAVARLVLRRL 68
>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 = 0.90
Identities = 9/41 (21%), Positives = 18/41 (43%), Gaps = 3/41 (7%)
Query: 29 LLKEGDFPHLLFYGPSGAGKKTRIMALLKELY---GPVIIL 66
+ ++ + HLL G +G GK + L ++I+
Sbjct: 47 MPRDAEPRHLLVNGATGTGKSVLLRELAYTGLLRGDRMVIV 87
>3u4q_B ATP-dependent helicase/deoxyribonuclease subunit; helicase,
nuclease, double strand DNA repair, protein-DNA CO
hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus
subtilis} PDB: 3u44_B*
Length = 1166
Score = 30.1 bits (67), Expect = 0.90
Identities = 13/54 (24%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 39 LFYGPSGAGKKTRIMALLKEL-----YGPVIILNETDHLTREAQQALRRTMEKY 87
G SG+GK I+ +++ +G II D +T + L +T +
Sbjct: 5 FLVGRSGSGKTKLIINSIQDELRRAPFGKPIIFLVPDQMTFLMEYELAKTPDMG 58
>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 = 30.0 bits (67), Expect = 0.95
Identities = 11/37 (29%), Positives = 19/37 (51%)
Query: 23 ANHLRNLLKEGDFPHLLFYGPSGAGKKTRIMALLKEL 59
A+ L L +E ++ YG +G GK + +L +L
Sbjct: 33 ASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKL 69
>3a00_A Guanylate kinase, GMP kinase; domain movement, dimerization,
acetylation, ATP-binding, nucleotide-binding,
phosphoprotein, transferase; 1.80A {Saccharomyces
cerevisiae} PDB: 1ex6_A* 1ex7_A 1gky_A* 2zzz_A 3sqk_A
2zzy_A
Length = 186
Score = 29.4 bits (67), Expect = 0.97
Identities = 9/17 (52%), Positives = 10/17 (58%)
Query: 42 GPSGAGKKTRIMALLKE 58
GPSG GK T + L E
Sbjct: 8 GPSGTGKSTLLKKLFAE 24
>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic
peptide, membrane protein; 3.80A {Mus musculus} PDB:
3g61_A* 3g60_A*
Length = 1284
Score = 30.0 bits (68), Expect = 1.00
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 5/46 (10%)
Query: 42 GPSGAGKKTRIMALLKELYGPV---IILNETDHLTREAQQALRRTM 84
G SG GK T ++ LL+ Y P+ + L+ + + + Q LR +
Sbjct: 1066 GSSGCGKST-VVQLLERFYDPMAGSVFLDGKE-IKQLNVQWLRAQL 1109
Score = 26.9 bits (60), Expect = 9.0
Identities = 10/22 (45%), Positives = 14/22 (63%), Gaps = 1/22 (4%)
Query: 42 GPSGAGKKTRIMALLKELYGPV 63
G SG GK T + L++ LY P+
Sbjct: 423 GNSGCGKST-TVQLMQRLYDPL 443
>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 = 29.8 bits (67), Expect = 1.1
Identities = 14/52 (26%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 38 LLFYGPSGAGKKTRIMALLKELYGPVIILNETDHLTR---EAQQALRRTMEK 86
+L YGP G GK A+ E ++N + +++ E++ LR+ E+
Sbjct: 241 ILLYGPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEE 292
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 29.8 bits (67), Expect = 1.1
Identities = 13/65 (20%), Positives = 26/65 (40%), Gaps = 6/65 (9%)
Query: 21 KQANHLRNLLKEGDFPHLLFYGPSGAGKKTRI-MALLKELY---GPVIILNETDHLTREA 76
+ N+L++ + G+GK +I ++K+ +L T + E
Sbjct: 9 QMGRGSPNMLRKRQM--TVLDLHPGSGKTRKILPQIIKDAIQQRLRTAVLAPTRVVAAEM 66
Query: 77 QQALR 81
+ALR
Sbjct: 67 AEALR 71
>2yl4_A ATP-binding cassette SUB-family B member 10, mitochondrial;
membrane protein, mitochondrial transport; HET: ACP LMT
CDL 14Y; 2.85A {Homo sapiens} PDB: 4aa3_A*
Length = 595
Score = 29.9 bits (68), Expect = 1.2
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 7/47 (14%)
Query: 42 GPSGAGKKTRIMALLKELYGPV---IILNETDHLTREAQ-QALRRTM 84
GPSG+GK T +++LL LY P I L+ D R+ LR +
Sbjct: 377 GPSGSGKST-VLSLLLRLYDPASGTISLDGHD--IRQLNPVWLRSKI 420
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 29.4 bits (66), Expect = 1.2
Identities = 14/59 (23%), Positives = 25/59 (42%), Gaps = 6/59 (10%)
Query: 27 RNLLKEGDFPHLLFYGPSGAGKKTRIM-ALLKELY---GPVIILNETDHLTREAQQALR 81
++LK+G + GAGK R + +L E ++L T + E ++A
Sbjct: 2 SHMLKKGMT--TVLDFHPGAGKTRRFLPQILAECARRRLRTLVLAPTRVVLSEMKEAFH 58
>2qor_A Guanylate kinase; phosphotransferase, purine metabolism,
structural genomics, structural genomics of pathogenic
protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium
vivax}
Length = 204
Score = 29.0 bits (66), Expect = 1.3
Identities = 10/17 (58%), Positives = 11/17 (64%)
Query: 42 GPSGAGKKTRIMALLKE 58
GPSG GK T I +L E
Sbjct: 19 GPSGVGKGTLIKKVLSE 35
>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette,
hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}
Length = 279
Score = 29.1 bits (66), Expect = 1.3
Identities = 13/56 (23%), Positives = 23/56 (41%), Gaps = 5/56 (8%)
Query: 30 LKEGDFPHLLFYGPSGAGKKT---RIMALLKELYGPVIILNETDHLTREAQQALRR 82
+ +GD L G +GAGK T + A G V + + + + +R+
Sbjct: 44 IAKGDKWILY--GLNGAGKTTLLNILNAYEPATSGTVNLFGKMPGKVGYSAETVRQ 97
>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for
structural genomics of infec diseases, csgid, putative
guanylate kinase; HET: MSE; 2.05A {Listeria
monocytogenes}
Length = 208
Score = 29.0 bits (66), Expect = 1.4
Identities = 9/17 (52%), Positives = 11/17 (64%)
Query: 42 GPSGAGKKTRIMALLKE 58
GPSG GK T A+ K+
Sbjct: 15 GPSGVGKGTVREAVFKD 31
>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 = 29.4 bits (65), Expect = 1.5
Identities = 16/71 (22%), Positives = 23/71 (32%), Gaps = 15/71 (21%)
Query: 1 MSLWVDK------YRPNNLQKLDFHCKQANHLRNLLKE------GDFPHLLFYGPSGAGK 48
M++ VD Y P L + +Q L LL +P G G GK
Sbjct: 1 MAIVVDDSVFSPSYVPKRLPHRE---QQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGK 57
Query: 49 KTRIMALLKEL 59
+ L +
Sbjct: 58 TVTLRKLWELY 68
>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI,
protein structure initiative; 1.90A {Geobacillus
stearothermophilus} SCOP: c.37.1.6
Length = 201
Score = 28.5 bits (64), Expect = 1.7
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 3/28 (10%)
Query: 42 GPSGAGKKT---RIMALLKELYGPVIIL 66
G S +GK T ++ L+E V +
Sbjct: 29 GLSRSGKTTLANQLSQTLREQGISVCVF 56
>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A
{Mus musculus} SCOP: c.37.1.1
Length = 198
Score = 28.6 bits (65), Expect = 1.9
Identities = 10/17 (58%), Positives = 12/17 (70%)
Query: 42 GPSGAGKKTRIMALLKE 58
GPSGAGK T + L +E
Sbjct: 11 GPSGAGKSTLLKKLFQE 27
>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 = 28.6 bits (63), Expect = 2.0
Identities = 8/30 (26%), Positives = 12/30 (40%)
Query: 38 LLFYGPSGAGKKTRIMALLKELYGPVIILN 67
++ G S AGK + L L P +
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFG 35
>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP;
2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*
Length = 271
Score = 28.7 bits (65), Expect = 2.0
Identities = 12/22 (54%), Positives = 16/22 (72%), Gaps = 1/22 (4%)
Query: 42 GPSGAGKKTRIMALLKELYGPV 63
GP+G+GK T + ALL+ LY P
Sbjct: 52 GPNGSGKST-VAALLQNLYQPT 72
>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural
genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}
Length = 263
Score = 28.5 bits (64), Expect = 2.2
Identities = 14/40 (35%), Positives = 21/40 (52%), Gaps = 4/40 (10%)
Query: 28 NLLKEGDFPHLLFYGPSGAGKKT--RIMALLKELYGPVII 65
NL G+ +L GP+G+GK T R ++ L G + I
Sbjct: 25 NLEVNGEKVIIL--GPNGSGKTTLLRAISGLLPYSGNIFI 62
>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR;
2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB:
1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A
Length = 207
Score = 28.3 bits (64), Expect = 2.2
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 42 GPSGAGKKTRIMALLKE 58
GPS GK T + L +
Sbjct: 27 GPSAVGKSTVVRCLRER 43
>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and
permease protein; asymmetric dimer, tetramer,
P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus
lactis} SCOP: c.37.1.12
Length = 243
Score = 28.6 bits (65), Expect = 2.3
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 42 GPSGAGKKTRIMALLKELYGPV---IILNETDHLTREAQQALRRTM 84
GPSG GK T I +LL+ Y P I ++ + + + R +
Sbjct: 35 GPSGGGKST-IFSLLERFYQPTAGEITIDGQP-IDNISLENWRSQI 78
>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom
consortium, transferase; HET: EPE; 2.18A {Plasmodium
falciparum}
Length = 218
Score = 28.3 bits (64), Expect = 2.4
Identities = 11/17 (64%), Positives = 11/17 (64%)
Query: 42 GPSGAGKKTRIMALLKE 58
GPSG GK T I LL E
Sbjct: 30 GPSGVGKGTLIKKLLNE 46
>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide-
binding; HET: 5GP; 1.9A {Staphylococcus aureus}
Length = 207
Score = 28.2 bits (64), Expect = 2.4
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 42 GPSGAGKKTRIMALLKEL 59
GPSG GK T + ++
Sbjct: 13 GPSGVGKGTVRKRIFEDP 30
>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB;
ABC-transporter, transport protein; HET: ADP; 1.60A
{Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A*
2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*
Length = 247
Score = 28.2 bits (64), Expect = 2.5
Identities = 14/46 (30%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 42 GPSGAGKKTRIMALLKELYGPV---IILNETDHLTREAQQALRRTM 84
G SG+GK T + L++ Y P ++++ D L LRR +
Sbjct: 42 GRSGSGKST-LTKLIQRFYIPENGQVLIDGHD-LALADPNWLRRQV 85
>1p9r_A General secretion pathway protein E; bacterial type II secretion
system cytoplasmic protein - GSPE, putative ATPase/ ATP
binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11
PDB: 1p9w_A*
Length = 418
Score = 28.7 bits (65), Expect = 2.5
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 5/53 (9%)
Query: 12 NLQKLDFHCKQANHLRNLLKEGDFPH--LLFYGPSGAGKKTRIMALLKELYGP 62
+L L ++ R L+K PH +L GP+G+GK T + A L+EL
Sbjct: 145 DLHSLGMTAHNHDNFRRLIKR---PHGIILVTGPTGSGKSTTLYAGLQELNSS 194
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 28.1 bits (63), Expect = 2.7
Identities = 10/56 (17%), Positives = 19/56 (33%), Gaps = 2/56 (3%)
Query: 5 VDKYRPNNLQKLDFHCKQANHLRNLLKEGDFPHLLFYGPSGAGKKTRIM-ALLKEL 59
+ N+ ++ + L +G G G KT ++ A+ EL
Sbjct: 24 LSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVG-KTYLLAAIANEL 78
>2ghi_A Transport protein; multidrug resistance protein, MDR, structural
genomics, structural genomics consortium, SGC; 2.20A
{Plasmodium yoelii yoelii str}
Length = 260
Score = 27.9 bits (63), Expect = 3.1
Identities = 11/47 (23%), Positives = 19/47 (40%), Gaps = 8/47 (17%)
Query: 42 GPSGAGKKTRIMALLKELYGP--VIILNETD--HLTREAQQALRRTM 84
G +G+GK T I LL Y I + + + ++R +
Sbjct: 53 GHTGSGKST-IAKLLYRFYDAEGDIKIGGKNVNKYN---RNSIRSII 95
>2jlq_A Serine protease subunit NS3; ribonucleoprotein,
nucleotide-binding, viral nucleoprotein, endoplasmic
reticulum, helicase, hydrolase; 1.67A {Dengue virus 4}
PDB: 2jly_A* 2jls_A* 2jlu_A 2jlv_A* 2jlw_A 2jlx_A*
2jlz_A* 2jlr_A* 2bmf_A 2bhr_A
Length = 451
Score = 28.3 bits (63), Expect = 3.2
Identities = 14/58 (24%), Positives = 28/58 (48%), Gaps = 6/58 (10%)
Query: 28 NLLKEGDFPHLLFYGPSGAGKKTRIM-ALLKELY---GPVIILNETDHLTREAQQALR 81
++ ++ + GAGK RI+ ++++E +IL T + E ++ALR
Sbjct: 14 DIFRKKRL--TIMDLHPGAGKTKRILPSIVREALLRRLRTLILAPTRVVAAEMEEALR 69
>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}
Length = 181
Score = 27.7 bits (61), Expect = 3.3
Identities = 21/134 (15%), Positives = 44/134 (32%), Gaps = 17/134 (12%)
Query: 38 LLFYGPSGAGKKTRIMALLKELYGPVIILNETDHLTREAQQALRRTMEK----------Y 87
+L G + GK +AL+ G ++ ++ L +E Q +
Sbjct: 19 VLITGEANIGKSELSLALIDR--GHQLVCDDVIDLKQENNQLIGSCPSVANGYILITGIG 76
Query: 88 ITTCRLILCANSMSQVIPAIRSRCLCIRIPAPTHEEIVSVLTNICKKEGLTIPPEFALRL 147
I + +++ S L P ++ ++ L G+ +P +
Sbjct: 77 IIDVPKLFGLDAVVNQHEVHLSISLVKPEKMPLLDDPLNPLYRTEIILGINVP---KILF 133
Query: 148 AQQSDRNLRRAILM 161
RNL +L+
Sbjct: 134 PIHPGRNL--PLLI 145
>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 = 27.4 bits (60), Expect = 4.1
Identities = 11/33 (33%), Positives = 14/33 (42%)
Query: 38 LLFYGPSGAGKKTRIMALLKELYGPVIILNETD 70
LL G G+GK T AL P + + D
Sbjct: 12 LLLSGHPGSGKSTIAEALANLPGVPKVHFHSDD 44
>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 = 27.2 bits (60), Expect = 5.2
Identities = 9/28 (32%), Positives = 12/28 (42%)
Query: 38 LLFYGPSGAGKKTRIMALLKELYGPVII 65
+ GP+G GK T L +L I
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQLDNSAYI 32
>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase;
2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A*
2anb_A* 2anc_A 2f3r_A* 2f3t_A*
Length = 219
Score = 27.1 bits (61), Expect = 5.6
Identities = 11/17 (64%), Positives = 12/17 (70%)
Query: 42 GPSGAGKKTRIMALLKE 58
PSGAGK + I ALLK
Sbjct: 23 APSGAGKSSLIQALLKT 39
>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta
motif, beta sandwich, ligand binding protein; 1.90A
{Alicyclobacillus acidocaldarius}
Length = 355
Score = 27.2 bits (61), Expect = 6.1
Identities = 13/26 (50%), Positives = 18/26 (69%), Gaps = 4/26 (15%)
Query: 31 KEGDFPHLLFYGPSGAGKKT--RIMA 54
+EG+ LL GPSG+GK T R++A
Sbjct: 39 REGEMVGLL--GPSGSGKTTILRLIA 62
>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane,
membrane, transmembrane, transport, ATP- binding,
hydrolase, nucleotide-binding, periplasm; HET: 1PE;
2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C
Length = 249
Score = 27.1 bits (61), Expect = 6.3
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 6/32 (18%)
Query: 30 LKEGDFPHLLFYGPSGAGKKTRIMALLKELYG 61
++ G+ HL+ GP+GAGK T LL + G
Sbjct: 23 VRAGEILHLV--GPNGAGKST----LLARMAG 48
>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides,
nucleotides, transferase; HET: 5GP; 1.85A {Coxiella
burnetii}
Length = 205
Score = 26.7 bits (60), Expect = 6.8
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 42 GPSGAGKKTRIMALLKE 58
PSGAGK + + AL+K
Sbjct: 14 APSGAGKTSLVRALVKA 30
>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein;
ATP-binding, nucleotide-binding, membrane,
transmembrane, transport protein; 3.00A {Methanosarcina
acetivorans} SCOP: b.40.6.3 c.37.1.12
Length = 348
Score = 27.1 bits (61), Expect = 7.5
Identities = 9/26 (34%), Positives = 16/26 (61%), Gaps = 4/26 (15%)
Query: 31 KEGDFPHLLFYGPSGAGKKT--RIMA 54
+ G++ +L GP+GAGK ++A
Sbjct: 24 ESGEYFVIL--GPTGAGKTLFLELIA 47
>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 = 27.0 bits (59), Expect = 7.6
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 2/38 (5%)
Query: 38 LLFYGPSGAGKKTRIMALLKELYGPVIILNETDHLTRE 75
+L G G+GK T + + G I D +
Sbjct: 5 ILTIGCPGSGKSTWAREFIAKNPGFYNI--NRDDYRQS 40
>1h2v_C 80 kDa nuclear CAP binding protein; CAP-binding-complex, RNP
domain, MIF4G domain, RNA maturation, RNA export,
nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP:
a.118.1.14 a.118.1.14 a.118.1.14 PDB: 1n52_A* 1n54_A
3fex_A 3fey_A 1h6k_A 1h2t_C* 1h2u_A*
Length = 771
Score = 27.1 bits (59), Expect = 7.8
Identities = 9/36 (25%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 111 CLCIRIPAPTHEEI--VSVLTNICKKEGLTIPPEFA 144
++PAP H ++ ++L +CK + ++P A
Sbjct: 338 AELFQLPAPPHIDVMYTTLLIELCKLQPGSLPQVLA 373
>2qkg_A Insecticidal delta-endotoxin CRY8EA1; 2.30A {Bacillus
thuringiensis} PDB: 3eb7_A
Length = 589
Score = 27.1 bits (59), Expect = 7.9
Identities = 19/103 (18%), Positives = 33/103 (32%), Gaps = 10/103 (9%)
Query: 180 EPDWKIYIRDTAKLI---ISEQSPKKLLEVRTRLYELLVHSIPVNVLFKYLLEGLLANCD 236
+ W+I++ LI I+E + K L L L+ LE N
Sbjct: 45 KSQWEIFMEQVEALINQKIAEYARAKALAELEGLGNNYQ-------LYLTALEEWQENPS 97
Query: 237 SDLKSKSIEMAAMFEHRIHKGSKPIFHIEAYVASFMAMYLQFM 279
S + + + P F + Y +++Y Q
Sbjct: 98 STRVLRDVRNRFEILDSLFTQYMPSFRVTGYEVPLLSVYAQAA 140
>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 = 26.8 bits (59), Expect = 8.1
Identities = 13/65 (20%), Positives = 22/65 (33%), Gaps = 7/65 (10%)
Query: 38 LLFYGPSGAGKKTRIMALLK--ELYGPVIILNETDHLT--REAQQALR---RTMEKYITT 90
+ +GP+ GK A+ YG V NE + + K + +
Sbjct: 107 IWLFGPATTGKTNIAEAIAHTVPFYGCVNWTNENFPFNDCVDKMVIWWEEGKMTAKVVES 166
Query: 91 CRLIL 95
+ IL
Sbjct: 167 AKAIL 171
>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 = 27.0 bits (59), Expect = 8.2
Identities = 21/115 (18%), Positives = 36/115 (31%), Gaps = 7/115 (6%)
Query: 28 NLLKEGDFPHLLFYGPSGAGKKTRIMALLKELYGPVIILN------ETDHLTREAQQALR 81
LK P L G GK + I + EL P I L+ ++ L+
Sbjct: 23 EKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFEERNYISYKDFLLELQ 82
Query: 82 RTMEKYITTCRLILCANSMSQVIPAIRSRCLCIRIPAPTHEEIVSVLTNICKKEG 136
+ + K + +L A Q I I + ++L + +
Sbjct: 83 KEINKLVKRLPSLLKALKNIQGIV-IMGNEIKFNWNRKDRLSFANLLESFEQASK 136
>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 = 26.3 bits (59), Expect = 8.2
Identities = 4/17 (23%), Positives = 8/17 (47%)
Query: 42 GPSGAGKKTRIMALLKE 58
G G G++ L+ +
Sbjct: 12 GAHGVGRRHIKNTLITK 28
>1hyp_A Hydrophobic protein from soybean; hydrophobic SEED protein; 1.80A
{Glycine max} SCOP: a.52.1.1
Length = 80
Score = 25.2 bits (55), Expect = 8.8
Identities = 13/72 (18%), Positives = 25/72 (34%), Gaps = 21/72 (29%)
Query: 90 TC-RLILCANSMSQVIPAIR--------------SRCLCIRIPAPTHEEI---VSVLTNI 131
+C L +C N + + + CLCI++ A + + ++ N
Sbjct: 7 SCPDLSICLNILGGSLGTVDDCCALIGGLGDIEAIVCLCIQLRALGILNLNRNLQLILNS 66
Query: 132 CKKEGLTIPPEF 143
C G + P
Sbjct: 67 C---GRSYPSNA 75
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 26.3 bits (58), Expect = 9.2
Identities = 9/38 (23%), Positives = 14/38 (36%), Gaps = 2/38 (5%)
Query: 38 LLFYGPSGAGKKTRIMALLKELYGPVIILNETDHLTRE 75
+L G G+GK T + + G I D +
Sbjct: 5 ILTIGCPGSGKSTWAREFIAKNPGFYNI--NRDDYRQS 40
>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural
genomics, BSGC structure funded by NIH, protein
structure initiative, PSI; HET: GDP; 2.80A {Thermotoga
maritima} SCOP: b.40.4.5 c.37.1.8
Length = 301
Score = 26.7 bits (60), Expect = 9.3
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 39 LFYGPSGAGKKTRIMALLKEL 59
G SG GK + + A+ L
Sbjct: 173 TMAGLSGVGKSSLLNAINPGL 193
>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 = 26.4 bits (58), Expect = 9.6
Identities = 16/81 (19%), Positives = 26/81 (32%), Gaps = 18/81 (22%)
Query: 36 PHL-LFYGPSGAGKKTRIMALLKELYGPVI----------------ILNETDHLTREAQQ 78
P L + G GK T AL L P++ + + A
Sbjct: 5 PALIIVTGHPATGKTTLSQALATGLRLPLLSKDAFKEVMFDGLGWSDREWSRRVGATAIM 64
Query: 79 ALRRTMEKYITTCR-LILCAN 98
L T + + + LI+ +N
Sbjct: 65 MLYHTAATILQSGQSLIMESN 85
>1tvc_A Methane monooxygenase component C, methane monooxygenase;
FAD-binding, NADH-binding, oxidoreductase; HET: FDA; NMR
{Methylococcus capsulatus} SCOP: b.43.4.2 c.25.1.2
Length = 250
Score = 26.4 bits (59), Expect = 9.7
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 8/43 (18%)
Query: 10 PNNLQKLDFHCKQA------NHLRNLLKEGDFPHLLFYGPSGA 46
PN +L+F + ++LRN + G L GP G
Sbjct: 69 PNPEGRLEFLIRVLPEGRFSDYLRNDARVGQ--VLSVKGPLGV 109
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
0.324 0.138 0.408
Gapped
Lambda K H
0.267 0.0600 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,323,474
Number of extensions: 254348
Number of successful extensions: 1279
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1256
Number of HSP's successfully gapped: 128
Length of query: 287
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 194
Effective length of database: 4,105,140
Effective search space: 796397160
Effective search space used: 796397160
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 57 (26.0 bits)