RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy15936
(665 letters)
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 478 bits (1233), Expect = e-167
Identities = 156/299 (52%), Positives = 210/299 (70%), Gaps = 29/299 (9%)
Query: 365 VSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGT 424
M V++ P+ YE +GGL+ Q++EI+EV+ELP+KHPELF+ +GI PKG+LLYGPPGT
Sbjct: 3 AKAMEVDERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGT 62
Query: 425 GKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSI 484
GKTLLA+AVA T TFIRV GSELV+KFIGEG+ +V+++F +A+E APSIIF+DEID+I
Sbjct: 63 GKTLLAKAVATETNATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDEIDAI 122
Query: 485 GSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFE 544
+ R ++ +GGD EVQRT+++LL ++DGF+A ++
Sbjct: 123 AAKRTDALTGGDREVQRTLMQLLAEMDGFDARGDV------------------------- 157
Query: 545 MAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLR 604
K+I ATNR DILDPA+LRPGR DR IE P P+E+ RL+IL+IH+RKMNL +NL
Sbjct: 158 ----KIIGATNRPDILDPAILRPGRFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLE 213
Query: 605 KIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMSIKKL 663
+IA++ G GAE+K +CTEAGM A+RE R +VT +DF AV K+M+K K L
Sbjct: 214 EIAKMTEGCVGAELKAICTEAGMNAIRELRDYVTMDDFRKAVEKIMEKKKVKVKEPAHL 272
>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 = 319 bits (819), Expect = e-102
Identities = 136/537 (25%), Positives = 235/537 (43%), Gaps = 116/537 (21%)
Query: 133 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQ-EQGSYVGEVVKPMDKKK 191
K +LIV E NE N+ V + + ++ LQ +G V ++K +++
Sbjct: 19 QKNRPNRLIVDEA----------INEDNSVVSLSQPKMDELQLFRGDTV--LLKGKKRRE 66
Query: 192 VLVKVHPEGKFVVDIDKN-IDINDVT-PNCRVALRNESYTLHKILPNKMDVDEAIKSSEG 249
+ V + I +N V N RV L + ++ DV +
Sbjct: 67 AVCIVLSDD----TCSDEKIRMNRVVRNNLRVRL-GDVISIQPC----PDVKYGKR---- 113
Query: 250 FKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKP 309
+ V + + + E+ K E + +++ G
Sbjct: 114 -------------IHVLPIDDTVEGITGNLFEVYLK-PYFLEAYRPIRK-GDIFLVHGGM 158
Query: 310 MDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMM 369
+ +V+ P +V D I +P+
Sbjct: 159 RAVEFKVVETDPSPYCIVAPDTVIHCE------------------------GEPIKREDE 194
Query: 370 VEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLL 429
E + + Y+ +GG Q+ +IKE++ELP++HP LF A+G+ P+G+LLYGPPGTGKTL+
Sbjct: 195 EESLNEVGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLI 254
Query: 430 ARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRI 489
ARAVA+ T F ++G E++ K GE +R+ F A ++AP+IIF+DE+D+I R
Sbjct: 255 ARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKR- 313
Query: 490 ESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAK 549
+ G+ E +R + +LL +DG + ++
Sbjct: 314 -EKTHGEVE-RRIVSQLLTLMDGLKQRAHVI----------------------------- 342
Query: 550 VIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAEL 609
V+ ATNR + +DPAL R GR DR+++ P+ RL+IL+IH++ M L ++L ++A
Sbjct: 343 VMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADDVDLEQVANE 402
Query: 610 MPGASGAEVKGVCTEAGMYALRERR-----------------VHVTQEDFEMAVAKV 649
G GA++ +C+EA + A+R++ + VT +DF A+++
Sbjct: 403 THGHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDDFRWALSQS 459
>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 = 304 bits (781), Expect = 6e-99
Identities = 100/303 (33%), Positives = 160/303 (52%), Gaps = 54/303 (17%)
Query: 372 KVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLAR 431
+VP T+E +GGL++ +E++E+++ PV+HP+ F G+ KGVL YGPPG GKTLLA+
Sbjct: 8 EVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAK 67
Query: 432 AVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIES 491
A+A+ + FI + G EL+ + GE VRE+F AR+ AP ++F DE+DSI +R +
Sbjct: 68 AIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGN 127
Query: 492 GSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVI 551
G R + ++L ++DG KN+ +I
Sbjct: 128 IGDGGGAADRVINQILTEMDGMSTKKNV-----------------------------FII 158
Query: 552 MATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAELMP 611
ATNR DI+DPA+LRPGR+D+ I P P+E++R+ IL+ + RK + + ++L +A++
Sbjct: 159 GATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAKDVDLEFLAKMTN 218
Query: 612 GASGAEVKGVCTEAGMYALRER-------------------------RVHVTQEDFEMAV 646
G SGA++ +C A A+RE + ++ FE A+
Sbjct: 219 GFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDPVPEIRRDHFEEAM 278
Query: 647 AKV 649
Sbjct: 279 RFA 281
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 297 bits (762), Expect = 2e-96
Identities = 100/294 (34%), Positives = 153/294 (52%), Gaps = 50/294 (17%)
Query: 373 VPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARA 432
VP+ T+ +G L++ +E+ I PV++P+ F ALG+ P GVLL GPPG GKTLLA+A
Sbjct: 4 VPNVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKA 63
Query: 433 VAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESG 492
VA+ + FI V G EL+ ++GE R VR++F A+ AP +IF DE+D++ R
Sbjct: 64 VANESGLNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRR---- 119
Query: 493 SGGDSEV-QRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVI 551
S ++ R + +LL ++DG EA + + ++
Sbjct: 120 SDRETGASVRVVNQLLTEMDGLEARQQV-----------------------------FIM 150
Query: 552 MATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSR---KMNLTRGINLRKIAE 608
ATNR DI+DPA+LRPGR+D+ + P RL IL+ ++ K L +NL IA
Sbjct: 151 AATNRPDIIDPAILRPGRLDKTLFVGLPPPADRLAILKTITKNGTKPPLDADVNLEAIAG 210
Query: 609 LMP--GASGAEVKGVCTEAGMYALRER-----------RVHVTQEDFEMAVAKV 649
+ +GA++ + EA + ALR+ + V+ + FE A KV
Sbjct: 211 DLRCDCYTGADLSALVREASICALRQEMARQKSGNEKGELKVSHKHFEEAFKKV 264
>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 = 309 bits (792), Expect = 1e-94
Identities = 102/316 (32%), Positives = 165/316 (52%), Gaps = 54/316 (17%)
Query: 359 NKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLL 418
++ +P V +VP T+E +GGL++ +E++E+++ PV+HP+ F G+ KGVL
Sbjct: 457 SQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLF 516
Query: 419 YGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFM 478
YGPPG GKTLLA+A+A+ + FI + G EL+ + GE VRE+F AR+ AP ++F
Sbjct: 517 YGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFF 576
Query: 479 DEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHV 538
DE+DSI +R + G R + ++L ++DG KN+
Sbjct: 577 DELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNV------------------- 617
Query: 539 TQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLT 598
+I ATNR DI+DPA+LRPGR+D+ I P P+E++R+ IL+ + RK +
Sbjct: 618 ----------FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVA 667
Query: 599 RGINLRKIAELMPGASGAEVKGVCTEAGMYALRER------------------------- 633
+ ++L +A++ G SGA++ +C A A+RE
Sbjct: 668 KDVDLEFLAKMTNGFSGADLTEICQRACKLAIRESIESEIRRERERQTNPSAMEVEEDDP 727
Query: 634 RVHVTQEDFEMAVAKV 649
+ ++ FE A+
Sbjct: 728 VPEIRRDHFEEAMRFA 743
Score = 258 bits (660), Expect = 7e-76
Identities = 103/308 (33%), Positives = 168/308 (54%), Gaps = 51/308 (16%)
Query: 360 KVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLY 419
+ +P+ E + + Y+ VGG Q+ +IKE++ELP++HP LF A+G+ P+G+LLY
Sbjct: 185 EGEPIKREDEEESLNEVGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLY 244
Query: 420 GPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMD 479
GPPGTGKTL+ARAVA+ T F ++G E++ K GE +R+ F A ++AP+IIF+D
Sbjct: 245 GPPGTGKTLIARAVANETGAFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFID 304
Query: 480 EIDSIGSSRIESGSGGDSEVQRTMLE-LLNQLDGFEATKNIKGVCTEAGMYALRERRVHV 538
E+D+I R EV+R ++ LL +DG + ++
Sbjct: 305 ELDAIAPKR----EKTHGEVERRIVSQLLTLMDGLKQRAHV------------------- 341
Query: 539 TQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLT 598
V+ ATNR + +DPAL R GR DR+++ P+ RL+IL+IH++ M L
Sbjct: 342 ----------IVMAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLA 391
Query: 599 RGINLRKIAELMPGASGAEVKGVCTEAGMYALRERR-----------------VHVTQED 641
++L ++A G GA++ +C+EA + A+R++ + VT +D
Sbjct: 392 DDVDLEQVANETHGHVGADLAALCSEAALQAIRKKMDLIDLEDETIDAEVMNSLAVTMDD 451
Query: 642 FEMAVAKV 649
F A+++
Sbjct: 452 FRWALSQS 459
Score = 38.6 bits (90), Expect = 0.007
Identities = 2/50 (4%), Positives = 11/50 (22%)
Query: 377 TYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGK 426
+ + + + +++ + G +G
Sbjct: 748 SDNDIRKYEMFAQTLQQSRGFGSFRFPSGNQGGAGPSQGSGGGTGGSVYT 797
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding,
hydrolase; 2.70A {Drosophila melanogaster}
Length = 297
Score = 256 bits (656), Expect = 1e-80
Identities = 92/304 (30%), Positives = 147/304 (48%), Gaps = 47/304 (15%)
Query: 360 KVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLY 419
K+ L+ +VE + + G D + ++E++ LP PELF L KG+LL+
Sbjct: 2 KLVQLILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRAP-AKGLLLF 60
Query: 420 GPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMD 479
GPPG GKTLLARAVA TF+ +S + L K++G+G ++VR LF +AR PSIIF+D
Sbjct: 61 GPPGNGKTLLARAVATECSATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFID 120
Query: 480 EIDSIGSSRIESGSGGDSEVQRTML-ELLNQLDGFEATKNIKGVCTEAGMYALRERRVHV 538
E+DS+ S R S + E R + E L + DG + +
Sbjct: 121 EVDSLLSER----SSSEHEASRRLKTEFLVEFDGLPGNPDGDRIV--------------- 161
Query: 539 TQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLT 598
V+ ATNR LD A LR R +++ P+E+ R +L +K
Sbjct: 162 -----------VLAATNRPQELDEAALR--RFTKRVYVSLPDEQTRELLLNRLLQKQGSP 208
Query: 599 R-GINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVH------------VTQEDFEMA 645
LR++A++ G SG+++ + +A + +RE V +T++DF +
Sbjct: 209 LDTEALRRLAKITDGYSGSDLTALAKDAALEPIRELNVEQVKCLDISAMRAITEQDFHSS 268
Query: 646 VAKV 649
+ ++
Sbjct: 269 LKRI 272
>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 = 251 bits (644), Expect = 2e-78
Identities = 94/274 (34%), Positives = 144/274 (52%), Gaps = 39/274 (14%)
Query: 361 VDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYG 420
+DP + ++ EK P+ +E V GL+ + +KE + LPVK P LF G+LLYG
Sbjct: 2 IDPF-TAILSEK-PNVKWEDVAGLEGAKEALKEAVILPVKFPHLFKG-NRKPTSGILLYG 58
Query: 421 PPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDE 480
PPGTGK+ LA+AVA TF VS S+LV K++GE ++V++LF MARE+ PSIIF+D+
Sbjct: 59 PPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQ 118
Query: 481 IDSIGSSRIESGSGGDSEVQRTML-ELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVT 539
+D++ +R G+SE R + ELL Q++G + +GV
Sbjct: 119 VDALTGTR----GEGESEASRRIKTELLVQMNG--VGNDSQGVL---------------- 156
Query: 540 QEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKM-NLT 598
V+ ATN LD A+ R R +R+I P P+ AR + I+ +
Sbjct: 157 ----------VLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPCVL 204
Query: 599 RGINLRKIAELMPGASGAEVKGVCTEAGMYALRE 632
+ R + + G SG+++ V +A M +R+
Sbjct: 205 TKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRK 238
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 250 bits (641), Expect = 5e-78
Identities = 91/269 (33%), Positives = 138/269 (51%), Gaps = 44/269 (16%)
Query: 370 VEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQP-KGVLLYGPPGTGKTL 428
V + P+ + V GL+ + +KE + LP+K P LF G P +G+LL+GPPGTGK+
Sbjct: 3 VIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFT--GKRTPWRGILLFGPPGTGKSY 60
Query: 429 LARAVAHHTEC---TFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIG 485
LA+AVA TE TF +S S+LV K++GE ++V+ LF +ARE+ PSIIF+DEIDS+
Sbjct: 61 LAKAVA--TEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLC 118
Query: 486 SSRIESGSGGDSEVQRTML-ELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFE 544
SR S +SE R + E L Q+ G G+
Sbjct: 119 GSR----SENESEAARRIKTEFLVQMQGVGVDN--DGIL--------------------- 151
Query: 545 MAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTR-GINL 603
V+ ATN +LD A+ R R +++I P P AR + ++H + +
Sbjct: 152 -----VLGATNIPWVLDSAIRR--RFEKRIYIPLPEPHARAAMFKLHLGTTQNSLTEADF 204
Query: 604 RKIAELMPGASGAEVKGVCTEAGMYALRE 632
R++ G SGA++ + +A M +R+
Sbjct: 205 RELGRKTDGYSGADISIIVRDALMQPVRK 233
>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 = 250 bits (640), Expect = 2e-77
Identities = 94/309 (30%), Positives = 146/309 (47%), Gaps = 48/309 (15%)
Query: 355 KILPNKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPK 414
K L K+ L+ +++ P +E + G++ IKE++ P+ P++F L PK
Sbjct: 60 KNLEPKMIELIMNEIMDHGPPVNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLRGP-PK 118
Query: 415 GVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPS 474
G+LL+GPPGTGKTL+ + +A + TF +S S L K++GEG +MVR LF +AR P+
Sbjct: 119 GILLFGPPGTGKTLIGKCIASQSGATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPA 178
Query: 475 IIFMDEIDSIGSSRIESGSGGDSEVQRTML-ELLNQLDGFEATKNIKGVCTEAGMYALRE 533
+IF+DEIDS+ S R G+ E R + E L QLDG + E
Sbjct: 179 VIFIDEIDSLLSQR----GDGEHESSRRIKTEFLVQLDGATTSS---------------E 219
Query: 534 RRVHVTQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIH-S 592
R+ V+ ATNR +D A R R+ +++ P P AR I+ S
Sbjct: 220 DRI------------LVVGATNRPQEIDEAARR--RLVKRLYIPLPEASARKQIVINLMS 265
Query: 593 RKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVH------------VTQE 640
++ + +I + SGA++ +C EA + +R + +
Sbjct: 266 KEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIRSLQTADIATITPDQVRPIAYI 325
Query: 641 DFEMAVAKV 649
DFE A V
Sbjct: 326 DFENAFRTV 334
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 247 bits (631), Expect = 5e-77
Identities = 44/284 (15%), Positives = 91/284 (32%), Gaps = 49/284 (17%)
Query: 380 MVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTEC 439
+ G + +++ K I P + ++G G GK+ V
Sbjct: 5 KLDGFYIAPAFMDKLVVHITK--NFLKLPNIKVPLILGIWGGKGQGKSFQCELVFRKMGI 62
Query: 440 TFIRVSGSELVQKFIGEGSRMVRELFVMA----REHAPSIIFMDEIDSIGSSRIESGSGG 495
I +S EL GE ++++R+ + A R+ +F++++D+ +
Sbjct: 63 NPIMMSAGELESGNAGEPAKLIRQRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYT 122
Query: 496 --DSEVQRTMLELLN-----QLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVA 548
+ V T++ + + QL G + V
Sbjct: 123 VNNQMVNATLMNIADNPTNVQLPGMYNKQENARV-------------------------- 156
Query: 549 KVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAE 608
+I+ N L L+R GR+++ P E R+ + R T + + +
Sbjct: 157 PIIVTGNDFSTLYAPLIRDGRMEKFYWAPTR--EDRIGVCTGIFR----TDNVPAEDVVK 210
Query: 609 LMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQK 652
++ G + G R V + + K+ K
Sbjct: 211 IVDNFPGQSID----FFGALRARVYDDEVRKWVSGTGIEKIGDK 250
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 249 bits (638), Expect = 1e-76
Identities = 88/305 (28%), Positives = 145/305 (47%), Gaps = 48/305 (15%)
Query: 359 NKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLL 418
+ + L+ +V+ ++ + G D + ++E++ LP PELF L +G+LL
Sbjct: 95 SNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRAP-ARGLLL 153
Query: 419 YGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFM 478
+GPPG GKT+LA+AVA + TF +S + L K++GEG ++VR LF +ARE PSIIF+
Sbjct: 154 FGPPGNGKTMLAKAVAAESNATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFI 213
Query: 479 DEIDSIGSSRIESGSGGDSEVQRTML-ELLNQLDGFEATKNIKGVCTEAGMYALRERRVH 537
D++DS+ R G+ + R + E L + DG + V
Sbjct: 214 DQVDSLLCER----REGEHDASRRLKTEFLIEFDGV-QSAGDDRVL-------------- 254
Query: 538 VTQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNL 597
V+ ATNR LD A+LR R +++ PNEE RL +L+ K
Sbjct: 255 ------------VMGATNRPQELDEAVLR--RFIKRVYVSLPNEETRLLLLKNLLCKQGS 300
Query: 598 TR-GINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVH------------VTQEDFEM 644
L ++A + G SG+++ + +A + +RE + + DF
Sbjct: 301 PLTQKELAQLARMTDGYSGSDLTALAKDAALGPIRELKPEQVKNMSASEMRNIRLSDFTE 360
Query: 645 AVAKV 649
++ K+
Sbjct: 361 SLKKI 365
>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 = 244 bits (626), Expect = 2e-76
Identities = 100/289 (34%), Positives = 158/289 (54%), Gaps = 33/289 (11%)
Query: 377 TYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 436
+++ V G+ E++E ++ +K PE F LG PKG LL GPPG GKTLLA+AVA
Sbjct: 4 SFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVATE 62
Query: 437 TECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIES-GSGG 495
+ F+ ++G+E V+ G G+ VR LF AR AP I+++DEID++G R +
Sbjct: 63 AQVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRSTTMSGFS 122
Query: 496 DSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATN 555
++E ++T+ +LL ++DG T ++ V+ +TN
Sbjct: 123 NTEEEQTLNQLLVEMDGMGTTDHV-----------------------------IVLASTN 153
Query: 556 RIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINL--RKIAELMPGA 613
R DILD AL+RPGR+DR + P + R +I H + + LT+ +++AEL PG
Sbjct: 154 RADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGF 213
Query: 614 SGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMSIKK 662
SGA++ +C EA ++A RE V +FE AV +V+ ++K+ + K
Sbjct: 214 SGADIANICNEAALHAAREGHTSVHTLNFEYAVERVLAGTAKKSKILSK 262
>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 = 243 bits (622), Expect = 6e-76
Identities = 103/293 (35%), Positives = 165/293 (56%), Gaps = 30/293 (10%)
Query: 369 MVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTL 428
+ + P+ ++ + G + +E+ E+++ +K+PE + LG PKGVLL GPPGTGKTL
Sbjct: 1 INAEKPNVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTL 59
Query: 429 LARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSR 488
LA+AVA F + GS ++ F+G G+ VR+LF A++ APSIIF+DEID+IG SR
Sbjct: 60 LAKAVAGEAHVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSR 119
Query: 489 IESG-SGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAV 547
G G+ E ++T+ +LL ++DGF + V
Sbjct: 120 AAGGVVSGNDEREQTLNQLLAEMDGFGSEN--APVI------------------------ 153
Query: 548 AKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIA 607
V+ ATNR +ILDPAL+RPGR DR++ P+ R++IL++H + + L +NL+++A
Sbjct: 154 --VLAATNRPEILDPALMRPGRFDRQVLVDKPDFNGRVEILKVHIKGVKLANDVNLQEVA 211
Query: 608 ELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMSI 660
+L G +GA++ + EA + A R + V Q+ + AV + + +K
Sbjct: 212 KLTAGLAGADLANIINEAALLAGRNNQKEVRQQHLKEAVERGIAGLEKKLEHH 264
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 242 bits (619), Expect = 1e-75
Identities = 108/283 (38%), Positives = 159/283 (56%), Gaps = 30/283 (10%)
Query: 368 MMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKT 427
M+ E +T+ V G D +E+ E++E ++ P F LG PKGVL+ GPPGTGKT
Sbjct: 1 MLTEDQIKTTFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKT 59
Query: 428 LLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSS 487
LLA+A+A + F +SGS+ V+ F+G G+ VR++F A++ AP IIF+DEID++G
Sbjct: 60 LLAKAIAGEAKVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQ 119
Query: 488 RIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAV 547
R GG E ++T+ ++L ++DGFE + I
Sbjct: 120 RGAGLGGGHDEREQTLNQMLVEMDGFEGNEGI---------------------------- 151
Query: 548 AKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIA 607
VI ATNR D+LDPALLRPGR DR++ P+ R IL++H R++ L I+ IA
Sbjct: 152 -IVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAPDIDAAIIA 210
Query: 608 ELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVM 650
PG SGA++ + EA ++A R + V+ +FE A K+M
Sbjct: 211 RGTPGFSGADLANLVNEAALFAARGNKRVVSMVEFEKAKDKIM 253
Score = 31.5 bits (72), Expect = 0.65
Identities = 10/31 (32%), Positives = 18/31 (58%)
Query: 522 VCTEAGMYALRERRVHVTQEDFEMAVAKVIM 552
+ EA ++A R + V+ +FE A K++M
Sbjct: 224 LVNEAALFAARGNKRVVSMVEFEKAKDKIMM 254
>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 = 237 bits (606), Expect = 8e-74
Identities = 112/280 (40%), Positives = 159/280 (56%), Gaps = 30/280 (10%)
Query: 368 MMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKT 427
++ + P T++ V G + +E+KE++E +K+P F +G PKGVLL GPPG GKT
Sbjct: 5 SVLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKT 63
Query: 428 LLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSS 487
LARAVA FI SGS+ V+ F+G G+ VR+LF A+ HAP I+F+DEID++G
Sbjct: 64 HLARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRK 123
Query: 488 RIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAV 547
R GG+ E ++T+ +LL ++DGFE I
Sbjct: 124 RGSGVGGGNDEREQTLNQLLVEMDGFEKDTAI---------------------------- 155
Query: 548 AKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIA 607
V+ ATNR DILDPALLRPGR DR+I P+ + R ILRIH+R L ++L +A
Sbjct: 156 -VVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLA 214
Query: 608 ELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVA 647
+ PG GA+++ + EA + A RE R +T +D E A +
Sbjct: 215 KRTPGFVGADLENLLNEAALLAAREGRRKITMKDLEEAAS 254
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 236 bits (604), Expect = 4e-73
Identities = 112/279 (40%), Positives = 159/279 (56%), Gaps = 30/279 (10%)
Query: 369 MVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTL 428
++ + P T++ V G + +E+KE++E +K+P F +G PKGVLL GPPG GKT
Sbjct: 30 VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 88
Query: 429 LARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSR 488
LARAVA FI SGS+ V+ F+G G+ VR+LF A+ HAP I+F+DEID++G R
Sbjct: 89 LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 148
Query: 489 IESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVA 548
GG+ E ++T+ +LL ++DGFE I
Sbjct: 149 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAI----------------------------- 179
Query: 549 KVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAE 608
V+ ATNR DILDPALLRPGR DR+I P+ + R ILRIH+R L ++L +A+
Sbjct: 180 VVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAK 239
Query: 609 LMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVA 647
PG GA+++ + EA + A RE R +T +D E A +
Sbjct: 240 RTPGFVGADLENLLNEAALLAAREGRRKITMKDLEEAAS 278
>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 = 237 bits (605), Expect = 2e-72
Identities = 92/275 (33%), Positives = 144/275 (52%), Gaps = 37/275 (13%)
Query: 360 KVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLY 419
K+ +S ++ + P+ +E V GL+ + +KE + LPVK P LF G+LLY
Sbjct: 32 KLRGALSSAILSEKPNVKWEDVAGLEGAKEALKEAVILPVKFPHLF-KGNRKPTSGILLY 90
Query: 420 GPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMD 479
GPPGTGK+ LA+AVA TF VS S+LV K++GE ++V++LF MARE+ PSIIF+D
Sbjct: 91 GPPGTGKSYLAKAVATEANSTFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFID 150
Query: 480 EIDSIGSSRIESGSGGDSEVQRTML-ELLNQLDGFEATKNIKGVCTEAGMYALRERRVHV 538
++D++ +R G+SE R + ELL Q++G + +GV
Sbjct: 151 QVDALTGTR----GEGESEASRRIKTELLVQMNGV--GNDSQGVL--------------- 189
Query: 539 TQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKM-NL 597
V+ ATN LD A+ R R +R+I P P+ AR + I+ ++
Sbjct: 190 -----------VLGATNIPWQLDSAIRR--RFERRIYIPLPDLAARTTMFEINVGDTPSV 236
Query: 598 TRGINLRKIAELMPGASGAEVKGVCTEAGMYALRE 632
+ R + + G SG+++ V +A M +R+
Sbjct: 237 LTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRK 271
>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 = 232 bits (593), Expect = 1e-69
Identities = 102/395 (25%), Positives = 170/395 (43%), Gaps = 64/395 (16%)
Query: 241 DEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQG 300
D+A E + Y ++ +V + Q + + AK + + L+E
Sbjct: 22 DKAGNYEEALQ-LYQHAVQYFLHVVKYEAQG----DKAKQSIRAKCTEYLDRAEKLKEYL 76
Query: 301 SYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNK 360
+ + K++ V +G ++ D K
Sbjct: 77 KKKEKKPQKPVKEEQSGPVDEKGNDSDGEAESDDPEK---------------------KK 115
Query: 361 VDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYG 420
+ + +V + P+ + V GL+ + +KE + LP+K P LF +G+LL+G
Sbjct: 116 LQNQLQGAIVIERPNVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGK-RTPWRGILLFG 174
Query: 421 PPGTGKTLLARAVAHHTE-CTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMD 479
PPGTGK+ LA+AVA TF +S S+LV K++GE ++V+ LF +ARE+ PSIIF+D
Sbjct: 175 PPGTGKSYLAKAVATEANNSTFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFID 234
Query: 480 EIDSIGSSRIESGSGGDSEVQRTML-ELLNQLDGFEATKNIKGVCTEAGMYALRERRVHV 538
EIDS+ SR S +SE R + E L Q+ G G+
Sbjct: 235 EIDSLCGSR----SENESEAARRIKTEFLVQMQGVGVDN--DGIL--------------- 273
Query: 539 TQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLT 598
V+ ATN +LD A+ R R +++I P P AR + R+H +
Sbjct: 274 -----------VLGATNIPWVLDSAIRR--RFEKRIYIPLPEAHARAAMFRLHLGSTQNS 320
Query: 599 R-GINLRKIAELMPGASGAEVKGVCTEAGMYALRE 632
+ +++ G SGA++ + +A M +R+
Sbjct: 321 LTEADFQELGRKTDGYSGADISIIVRDALMQPVRK 355
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 231 bits (592), Expect = 1e-68
Identities = 114/282 (40%), Positives = 161/282 (57%), Gaps = 30/282 (10%)
Query: 369 MVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTL 428
++ + P T++ V G + +E+KE++E +K+P F +G PKGVLL GPPG GKT
Sbjct: 21 VLTEAPKVTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTH 79
Query: 429 LARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSR 488
LARAVA FI SGS+ V+ F+G G+ VR+LF A+ HAP I+F+DEID++G R
Sbjct: 80 LARAVAGEARVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKR 139
Query: 489 IESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVA 548
GG+ E ++T+ +LL ++DGFE I
Sbjct: 140 GSGVGGGNDEREQTLNQLLVEMDGFEKDTAI----------------------------- 170
Query: 549 KVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAE 608
V+ ATNR DILDPALLRPGR DR+I P+ + R ILRIH+R L ++L +A+
Sbjct: 171 VVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLALLAK 230
Query: 609 LMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVM 650
PG GA+++ + EA + A RE R +T +D E A +VM
Sbjct: 231 RTPGFVGADLENLLNEAALLAAREGRRKITMKDLEEAADRVM 272
Score = 32.6 bits (75), Expect = 0.41
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 525 EAGMYALRERRVHVTQEDFEMAVAKVIMATNR 556
EA + A RE R +T +D E A +V+M +
Sbjct: 246 EAALLAAREGRRKITMKDLEEAADRVMMLPAK 277
>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 = 230 bits (589), Expect = 2e-68
Identities = 119/288 (41%), Positives = 162/288 (56%), Gaps = 38/288 (13%)
Query: 367 LMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGK 426
+ T++ VGG + I+E+KEV+E +K P F+ +G PKG+LL GPPGTGK
Sbjct: 4 MYKPSGNKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGK 62
Query: 427 TLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGS 486
TLLARAVA F +SGS+ V+ F+G G+ VR+LF A+ HAP I+F+DEID++G
Sbjct: 63 TLLARAVAGEANVPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGR 122
Query: 487 SRIESGSGGDSEVQRTMLELLNQL----DGFEATKNIKGVCTEAGMYALRERRVHVTQED 542
R GG E ++T LNQL DGF++ + I
Sbjct: 123 HRGAGLGGGHDEREQT----LNQLLVEMDGFDSKEGI----------------------- 155
Query: 543 FEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGIN 602
V+ ATNR DILDPALLRPGR D+KI PP+ R IL IH+R L +N
Sbjct: 156 ------IVMAATNRPDILDPALLRPGRFDKKIVVDPPDMLGRKKILEIHTRNKPLAEDVN 209
Query: 603 LRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVM 650
L IA+ PG GA+++ + EA + A RE R +T +DFE A+ +V+
Sbjct: 210 LEIIAKRTPGFVGADLENLVNEAALLAAREGRDKITMKDFEEAIDRVI 257
Score = 32.5 bits (75), Expect = 0.40
Identities = 14/32 (43%), Positives = 19/32 (59%)
Query: 525 EAGMYALRERRVHVTQEDFEMAVAKVIMATNR 556
EA + A RE R +T +DFE A+ +VI R
Sbjct: 231 EAALLAAREGRDKITMKDFEEAIDRVIAGPAR 262
>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 = 184 bits (469), Expect = 1e-53
Identities = 52/291 (17%), Positives = 94/291 (32%), Gaps = 50/291 (17%)
Query: 371 EKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLA 430
E + + + + + EL V+ + D VLL GPP +GKT LA
Sbjct: 25 EDYASYIMNGIIKWGDPVTRVLDDGELLVQQTKNSDRTP---LVSVLLEGPPHSGKTALA 81
Query: 431 RAVAHHTECTFIRVSGSELVQKFIGEG-SRMVRELFVMAREHAPSIIFMDEIDSIGSSRI 489
+A + FI++ + + F + ++++F A + S + +D+I+ + +
Sbjct: 82 AKIAEESNFPFIKICSPDKMIGFSETAKCQAMKKIFDDAYKSQLSCVVVDDIERL----L 137
Query: 490 ESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAK 549
+ G + LL L + R++
Sbjct: 138 DYVPIGPRFSNLVLQALLVLLKKAPP----------------QGRKL------------L 169
Query: 550 VIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAEL 609
+I T+R D+L + I PN +L N IA+
Sbjct: 170 IIGTTSRKDVLQ-EMEMLNAFSTTIHV--PNIATGEQLLEALELLGNFKD-KERTTIAQQ 225
Query: 610 MPGAS-GAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMS 659
+ G +K + M Q D E V K + E+ S
Sbjct: 226 VKGKKVWIGIKKLLMLIEM---------SLQMDPEYRVRKFLALLREEGAS 267
>2krk_A 26S protease regulatory subunit 8; structural genomics, northeast
structural genomics consortium (NESG), target HR3102A,
PSI-2; NMR {Homo sapiens}
Length = 86
Score = 142 bits (360), Expect = 1e-40
Identities = 75/81 (92%), Positives = 76/81 (93%)
Query: 574 IEFPPPNEEARLDILRIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER 633
PNEEARLDIL+IHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER
Sbjct: 6 HHHSHPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRER 65
Query: 634 RVHVTQEDFEMAVAKVMQKDS 654
RVHVTQEDFEMAVAKVMQKDS
Sbjct: 66 RVHVTQEDFEMAVAKVMQKDS 86
Score = 63.7 bits (156), Expect = 7e-13
Identities = 31/33 (93%), Positives = 33/33 (100%)
Query: 519 IKGVCTEAGMYALRERRVHVTQEDFEMAVAKVI 551
+KGVCTEAGMYALRERRVHVTQEDFEMAVAKV+
Sbjct: 50 VKGVCTEAGMYALRERRVHVTQEDFEMAVAKVM 82
>3kw6_A 26S protease regulatory subunit 8; structural genomics, PSI-2,
protein structure initiative, northeast structural
genomics consortium, NESG; 2.10A {Homo sapiens}
Length = 78
Score = 137 bits (347), Expect = 5e-39
Identities = 77/78 (98%), Positives = 78/78 (100%)
Query: 577 PPPNEEARLDILRIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVH 636
PPPNEEARLDIL+IHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVH
Sbjct: 1 PPPNEEARLDILKIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVH 60
Query: 637 VTQEDFEMAVAKVMQKDS 654
VTQEDFEMAVAKVMQKDS
Sbjct: 61 VTQEDFEMAVAKVMQKDS 78
Score = 63.7 bits (156), Expect = 5e-13
Identities = 31/33 (93%), Positives = 33/33 (100%)
Query: 519 IKGVCTEAGMYALRERRVHVTQEDFEMAVAKVI 551
+KGVCTEAGMYALRERRVHVTQEDFEMAVAKV+
Sbjct: 42 VKGVCTEAGMYALRERRVHVTQEDFEMAVAKVM 74
>3aji_B S6C, proteasome (prosome, macropain) 26S subunit, ATPA; gankyrin,
S6 ATPase, P-benzoyl-L-phenylalanine, PBPA, amber
suppression; HET: PBF; 2.05A {Mus musculus} PDB: 2dwz_B*
2dvw_B*
Length = 83
Score = 122 bits (308), Expect = 1e-33
Identities = 26/82 (31%), Positives = 43/82 (52%)
Query: 580 NEEARLDILRIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQ 639
+ + I + KMNL+ ++L SGA++ +C E+GM A+RE R V
Sbjct: 2 DRRQKRLIFSTITSKMNLSEEVDLEDYVARPDKISGADINSICQESGMLAVRENRYIVLA 61
Query: 640 EDFEMAVAKVMQKDSEKNMSIK 661
+DFE A V++KD +++ K
Sbjct: 62 KDFEKAYKTVIKKDEQEHEFYK 83
Score = 61.9 bits (151), Expect = 3e-12
Identities = 16/34 (47%), Positives = 20/34 (58%)
Query: 519 IKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIM 552
I +C E+GM A+RE R V +DFE A VI
Sbjct: 40 INSICQESGMLAVRENRYIVLAKDFEKAYKTVIK 73
>2wg5_A General control protein GCN4, proteasome-activating nucleotidase;
transcription hydrolase complex, nucleotide-binding;
2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A
Length = 109
Score = 119 bits (299), Expect = 4e-32
Identities = 30/106 (28%), Positives = 53/106 (50%)
Query: 267 EKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFV 326
+++L+ + EL +K L E+ L+ VG V ++ +V+VK KFV
Sbjct: 4 HHHHRMKQLEDKVEELLSKNYHLENEVARLRSPPLLVGVVSDILEDGRVVVKSSTGPKFV 63
Query: 327 VDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEK 372
V+ + I+ ++ P RVAL ++ + +LP DP+V VE+
Sbjct: 64 VNTSQYINEEELKPGARVALNQQTLAIVNVLPTSKDPMVYGFEVEE 109
Score = 101 bits (252), Expect = 1e-25
Identities = 26/96 (27%), Positives = 47/96 (48%)
Query: 144 EKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFV 203
+++L+ + EL +K L E+ L+ VG V ++ +V+VK KFV
Sbjct: 4 HHHHRMKQLEDKVEELLSKNYHLENEVARLRSPPLLVGVVSDILEDGRVVVKSSTGPKFV 63
Query: 204 VDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMD 239
V+ + I+ ++ P RVAL ++ + +LP D
Sbjct: 64 VNTSQYINEEELKPGARVALNQQTLAIVNVLPTSKD 99
>3vlf_B 26S protease regulatory subunit 7 homolog; heat repeat, chaperone,
chaperone-protein binding complex; HET: DNA; 3.80A
{Saccharomyces cerevisiae} PDB: 4a3v_B*
Length = 88
Score = 110 bits (277), Expect = 3e-29
Identities = 35/84 (41%), Positives = 55/84 (65%)
Query: 580 NEEARLDILRIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQ 639
+ E R +I RIHS+ M++ RGI I+ L P ++GAE++ VCTEAGM+A+R RR T+
Sbjct: 2 DLEGRANIFRIHSKSMSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARRKVATE 61
Query: 640 EDFEMAVAKVMQKDSEKNMSIKKL 663
+DF AV KV+ + + + + +
Sbjct: 62 KDFLKAVDKVISGYKKFSSTSRYM 85
Score = 56.1 bits (136), Expect = 3e-10
Identities = 19/38 (50%), Positives = 26/38 (68%)
Query: 519 IKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNR 556
++ VCTEAGM+A+R RR T++DF AV KVI +
Sbjct: 40 LRSVCTEAGMFAIRARRKVATEKDFLKAVDKVISGYKK 77
>2dzn_B 26S protease regulatory subunit 6B homolog; ankyrin repeats,
A-helical domain, structural genomics, NPPSFA; 2.20A
{Saccharomyces cerevisiae} PDB: 2dzo_B
Length = 82
Score = 108 bits (271), Expect = 1e-28
Identities = 21/75 (28%), Positives = 35/75 (46%)
Query: 584 RLDILRIHSRKMNLTRGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFE 643
R I + KM+L +L + SGA + + EAG+ A+R+ R + Q D E
Sbjct: 3 RRLIFGTIASKMSLAPEADLDSLIIRNDSLSGAVIAAIMQEAGLRAVRKNRYVILQSDLE 62
Query: 644 MAVAKVMQKDSEKNM 658
A A ++ D+ +
Sbjct: 63 EAYATQVKTDNTVDK 77
Score = 59.7 bits (145), Expect = 2e-11
Identities = 14/40 (35%), Positives = 21/40 (52%)
Query: 519 IKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRID 558
I + EAG+ A+R+ R + Q D E A A + N +D
Sbjct: 37 IAAIMQEAGLRAVRKNRYVILQSDLEEAYATQVKTDNTVD 76
>3h43_A Proteasome-activating nucleotidase; regulatory particle,
nucleosidase, ATP-binding, cytoplasm,
nucleotide-binding, hydrolase; 2.10A {Methanocaldococcus
jannaschii}
Length = 85
Score = 94.9 bits (236), Expect = 8e-24
Identities = 22/81 (27%), Positives = 41/81 (50%)
Query: 285 KVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRV 344
+ +LR EL ++ VG VV + ++KV+VK F+V++ ++ +D+ P RV
Sbjct: 3 ENEILRRELDRMRVPPLIVGTVVDKVGERKVVVKSSTGPSFLVNVSHFVNPDDLAPGKRV 62
Query: 345 ALRNESYTLHKILPNKVDPLV 365
L ++ T+ +LP
Sbjct: 63 CLNQQTLTVVDVLPELEHHHH 83
Score = 91.8 bits (228), Expect = 1e-22
Identities = 22/78 (28%), Positives = 41/78 (52%)
Query: 162 KVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRV 221
+ +LR EL ++ VG VV + ++KV+VK F+V++ ++ +D+ P RV
Sbjct: 3 ENEILRRELDRMRVPPLIVGTVVDKVGERKVVVKSSTGPSFLVNVSHFVNPDDLAPGKRV 62
Query: 222 ALRNESYTLHKILPNKMD 239
L ++ T+ +LP
Sbjct: 63 CLNQQTLTVVDVLPELEH 80
>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 = 91.1 bits (225), Expect = 5e-19
Identities = 92/636 (14%), Positives = 192/636 (30%), Gaps = 173/636 (27%)
Query: 1 MSGEALPNIY-----LSQKLKLSEVIE--PENLLEMLV-------YNGYLTAIPSQTKDV 46
+S E + +I +S L+L + E +++ V Y ++ I ++ +
Sbjct: 46 LSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQP 105
Query: 47 PLKRKMPGQNKNETVVTTITFHNVTIPNREILTAFHKIIRKENKEKLQNANEGEMDVDEA 106
+ +M I + + ++ ++ + R + KL+ A
Sbjct: 106 SMMTRM-----------YIEQRDRLYNDNQVFAKYN-VSRLQPYLKLRQA---------- 143
Query: 107 YTYEVERQRTV-------------------DEAIKSSEGFKPYYVT----KIEELQLIVA 143
E+ + V ++ FK +++ E L
Sbjct: 144 -LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL--- 199
Query: 144 EKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFV 203
E Q L Q N + +L++ ++ ++ + K + V
Sbjct: 200 EMLQKLLY-QIDPNWTSRSDHSSNIKLRI---------HSIQAELRRLLKSKPYENCLLV 249
Query: 204 VD--IDKNIDINDVTPNCRVAL--RNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIE 259
+ + N +C++ L R + T + S T E
Sbjct: 250 LLNVQNAKA-WNAFNLSCKILLTTRFKQVTD-FLSAATTTHISLDHHSMTL-----TPDE 302
Query: 260 ELQL---IVAEKEQNLRRLQAQRNELNAKV--RMLREELQLLQE-------------QGS 301
L + + Q+L R N + +R+ L + S
Sbjct: 303 VKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS 362
Query: 302 YVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPN---CRVALRNESYTLHKILP 358
V++P + +K+ + V + I P + + +
Sbjct: 363 L--NVLEPAEYRKMFDR------LSV-FPPSAHI----PTILLSLIWFDVIKSDVMVV-- 407
Query: 359 NKVDPLVSLMMVEKVP-DSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVL 417
V+ L +VEK P +ST + ++ ++ H + D I PK
Sbjct: 408 --VNKLHKYSLVEKQPKESTISI---PSIYLELKVKLENEYALHRSIVDHYNI--PKT-- 458
Query: 418 LYGPPGTGKTLL----ARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAP 473
+ L + HH + E ++ + R +F+ R
Sbjct: 459 -FDSDDLIPPYLDQYFYSHIGHH-------LKNIEHPERM-----TLFRMVFLDFR---- 501
Query: 474 SIIFMDE-IDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALR 532
F+++ I ++ SGS +L L QL ++ +C Y
Sbjct: 502 ---FLEQKIRHDSTAWNASGS---------ILNTLQQLKFYK-----PYICDNDPKY--- 541
Query: 533 ERRVHVTQEDFEMAVAKVIMATNRIDILDPALLRPG 568
ER V+ DF + + ++ + D+L AL+
Sbjct: 542 ERLVN-AILDFLPKIEENLICSKYTDLLRIALMAED 576
Score = 70.7 bits (172), Expect = 1e-12
Identities = 63/442 (14%), Positives = 136/442 (30%), Gaps = 143/442 (32%)
Query: 228 YTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVR 287
Y IL ++A + F V + + I++++E + + ++ ++
Sbjct: 16 YQYKDILS---VFEDAFV--DNFDCKDVQ--DMPKSILSKEE--IDHIIMSKDAVS-GTL 65
Query: 288 MLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALR 347
L L + E+V+ KFV ++ +
Sbjct: 66 RL---FWTLLSKQE---EMVQ---------------KFVEEVLR---------------I 89
Query: 348 NESYTLHKILPNKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDA 407
N + + I + P + M + D Y DNQ+ + V + +
Sbjct: 90 NYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYN-----DNQV-----FAKYNVSRLQPYLK 139
Query: 408 LGIA----QP-KGVLLYGPPGTGKTLLARAVA--HHTECTF------------------- 441
L A +P K VL+ G G+GKT +A V + +C
Sbjct: 140 LRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVL 199
Query: 442 ---------------IRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEI-DS-- 483
R S ++ I +R L ++ + ++ + + ++
Sbjct: 200 EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLL-KSKPYENCLLVLLNVQNAKA 258
Query: 484 -----IGS-----SRIESGSGGDSEVQRTMLELLNQLDGFEATK---------NIKG--- 521
+ +R + + S T + L + + + +
Sbjct: 259 WNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDL 318
Query: 522 ---VCTEA----GMYALRERRVHVTQEDFEM----AVAKVIMATNRIDILDPALLRPGRI 570
V T + A R T ++++ + +I ++ +++L+PA R
Sbjct: 319 PREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESS--LNVLEPAEYRKMFD 376
Query: 571 DRKIEFPP----PNEEARLDIL 588
+ FPP P L ++
Sbjct: 377 RLSV-FPPSAHIP--TILLSLI 395
>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein,
calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides}
PDB: 3syk_A 3zuh_A*
Length = 309
Score = 77.5 bits (190), Expect = 1e-15
Identities = 56/311 (18%), Positives = 96/311 (30%), Gaps = 68/311 (21%)
Query: 379 EMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVL---LYGPPGTGKTLLARAVAH 435
E++G L I+E L + LG+A L G PGTGKT +A +A
Sbjct: 32 ELIG-LKPVKDRIRETAAL-LLVERARQKLGLAHETPTLHMSFTGNPGTGKTTVALKMAG 89
Query: 436 HT-------ECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSR 488
+ + V+ +LV ++IG + +E+ A ++F+DE +
Sbjct: 90 LLHRLGYVRKGHLVSVTRDDLVGQYIGHTAPKTKEVLKRAM---GGVLFIDEAYYLYRPD 146
Query: 489 IESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVA 548
Q + LL ++ ++D + +A
Sbjct: 147 -----NERDYGQEAIEILLQVMENN--------------------------RDDLVVILA 175
Query: 549 KVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLT----RGINLR 604
+P RI IEFP ++E +I N LR
Sbjct: 176 GYADRMENFFQSNPGFRS--RIAHHIEFPDYSDEELFEIAGHMLDDQNYQMTPEAETALR 233
Query: 605 KIAELMPG----ASGAEVKGVCTEAGM-YALR-----------ERRVHVTQEDFEMAVAK 648
L A+ ++ A + A R + +ED +
Sbjct: 234 AYIGLRRNQPHFANARSIRNALDRARLRQANRLFTASSGPLDARALSTIAEEDIRASRVF 293
Query: 649 VMQKDSEKNMS 659
DSE+ +
Sbjct: 294 KGGLDSERRAA 304
>3m9b_A Proteasome-associated ATPase; coil COIL with 5 beta-strand barrel
inter domain, chaperone; 3.94A {Mycobacterium
tuberculosis} PDB: 3m9d_A
Length = 251
Score = 71.8 bits (175), Expect = 4e-14
Identities = 27/164 (16%), Positives = 51/164 (31%), Gaps = 1/164 (0%)
Query: 257 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVL 316
I +L+ + +L E ++ LREE+ L + S G ++ D V
Sbjct: 55 DIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLGQPPSGYGVLLATHDDDTVD 114
Query: 317 VKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKVPDS 376
V K + NID + V L + V + +L +
Sbjct: 115 VFTS-GRKMRLTCSPNIDAASLKKGQTVRLNEALTVVEAGTFEAVGEISTLREILADGHR 173
Query: 377 TYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYG 420
+ + ++ + + + L +AL L G
Sbjct: 174 ALVVGHADEERVVWLADPLIAEDLPDGLPEALNDDTRPRKLRPG 217
Score = 40.6 bits (94), Expect = 9e-04
Identities = 26/115 (22%), Positives = 41/115 (35%), Gaps = 3/115 (2%)
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVL 193
I +L+ + +L E ++ LREE+ L + S G ++ D V
Sbjct: 55 DIHQLEARIDSLAARNSKLMETLKEARQQLLALREEVDRLGQPPSGYGVLLATHDDDTVD 114
Query: 194 VKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSE 248
V K + NID + V L NE+ T+ + V E E
Sbjct: 115 VFTS-GRKMRLTCSPNIDAASLKKGQTVRL-NEALTVVEAGTF-EAVGEISTLRE 166
>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 = 62.7 bits (152), Expect = 2e-10
Identities = 36/168 (21%), Positives = 63/168 (37%), Gaps = 17/168 (10%)
Query: 413 PKGVLLYGPPGTGKTLLARAVAHH--TECTFIRVSGSELVQKFIGEGSRMVRELF---VM 467
+ VLL GPPGTGKT LA A+A ++ F + GSE+ I + + ++ E F +
Sbjct: 63 GRAVLLAGPPGTGKTALALAIAQELGSKVPFCPMVGSEVYSTEI-KKTEVLMENFRRAIG 121
Query: 468 AREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAG 527
R ++ E+ + E+ GG + ++ L G + E
Sbjct: 122 LRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKG-TKQLKLDPSIFE-- 178
Query: 528 MYALRERRVHVTQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIE 575
+L++ RV V + + + D + E
Sbjct: 179 --SLQKERVEAGD------VIYIEANSGAVKRQGRCDTYATEFDLEAE 218
>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 = 60.7 bits (147), Expect = 8e-10
Identities = 29/161 (18%), Positives = 49/161 (30%), Gaps = 24/161 (14%)
Query: 366 SLMMVEK-VPDSTYEMVG--GLDNQIKE-IKEVIELPVKHPELFDALGIAQPKGVLLYGP 421
+ K P + ++ G G ++K + + G + +LYGP
Sbjct: 26 DKLWTVKYAPTNLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGP 85
Query: 422 PGTGKTLLARAVAHHTECTFIRVSGS-----ELVQKFIGEGSRM-------VRELFVMAR 469
PG GKT A VA + + S L+ +
Sbjct: 86 PGIGKTTAAHLVAQELGYDILEQNASDVRSKTLLNAGVKNALDNMSVVGYFKHNEEAQNL 145
Query: 470 EHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQL 510
+I MDE+D + SGGD + + +
Sbjct: 146 NGKHFVIIMDEVDGM--------SGGDRGGVGQLAQFCRKT 178
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 60.2 bits (147), Expect = 8e-10
Identities = 23/70 (32%), Positives = 38/70 (54%), Gaps = 11/70 (15%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHA--- 472
++L+GPPGTGKT LA +A + R+S + G + +RE AR++
Sbjct: 53 MILWGPPGTGKTTLAEVIARYANADVERISA-------VTSGVKEIREAIERARQNRNAG 105
Query: 473 -PSIIFMDEI 481
+I+F+DE+
Sbjct: 106 RRTILFVDEV 115
>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 = 59.3 bits (143), Expect = 4e-09
Identities = 44/299 (14%), Positives = 83/299 (27%), Gaps = 112/299 (37%)
Query: 381 VG-GLD--NQIKEIKEVIELPVKHPELFDALGIA-------QPKGVLLYGPPGTGKTLLA 430
G G+D K ++V H D G + P + ++ GK
Sbjct: 1629 QGMGMDLYKTSKAAQDVWNRADNH--FKDTYGFSILDIVINNPVNLTIHFGGEKGKR--- 1683
Query: 431 RAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIE 490
IR + S ++ + I +G ++F EH+ S F
Sbjct: 1684 -----------IRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTF------------- 1719
Query: 491 SGSGGDSEVQRTMLELLNQLDGFEATKN----IKGVCTEAGMYA-LRERRVHVTQEDFEM 545
+ LL+ T+ + E + L+ + + D
Sbjct: 1720 ---RSEK-------GLLSA------TQFTQPAL--TLMEKAAFEDLKSK--GLIPADATF 1759
Query: 546 A-------VAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLT 598
A A +A D++ E ++++
Sbjct: 1760 AGHSLGEYAALASLA----DVMS--------------I----ESL-VEVVFY-------- 1788
Query: 599 RGINLRKIAELMPGASGAEVKGVCTEAGMYALRERRVHVT--QEDFEMAVAKVMQKDSE 655
RG + +P + GM A+ RV + QE + V +V ++
Sbjct: 1789 RG---MTMQVAVPRDELGR-----SNYGMIAINPGRVAASFSQEALQYVVERVGKRTGW 1839
Score = 36.2 bits (83), Expect = 0.042
Identities = 41/280 (14%), Positives = 83/280 (29%), Gaps = 100/280 (35%)
Query: 83 KIIRKENKEK-LQNANEGEMDVDEAY---TYEVERQRTVDEAIKSSEGFKPYYVTKIEEL 138
I+ + E + E Y +E VD +K+ + FK
Sbjct: 1663 DIVINNPVNLTIHFGGEKGKRIRENYSAMIFET----IVDGKLKTEKIFK---------- 1708
Query: 139 QLIVAEKEQNLRRL--QAQRNELN--------------AKVRMLREELQLLQEQGSY--- 179
E ++ ++++ L+ A L+ + L+ ++
Sbjct: 1709 -----EINEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSK-GLIPADATFAGH 1762
Query: 180 -VGE---------VVKPMDKKKVLVK-VHPEGKFVVDIDKNIDINDVTPNCRVALRNESY 228
+GE V+ LV+ V G + P R L +Y
Sbjct: 1763 SLGEYAALASLADVMSIES----LVEVVFYRGMT---------MQVAVP--RDELGRSNY 1807
Query: 229 TLHKILPNKMDV---DEAIKSSEGFKPYYVTKIEE---------------LQLIVAEKEQ 270
+ I P ++ EA++ Y V ++ + Q + A +
Sbjct: 1808 GMIAINPGRVAASFSQEALQ-------YVVERVGKRTGWLVEIVNYNVENQQYVAAGDLR 1860
Query: 271 NLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPM 310
L + N + + + ++ LQ+ S E V+
Sbjct: 1861 ALDTVTNVLNFIKLQ----KIDIIELQKSLSL--EEVEGH 1894
Score = 32.3 bits (73), Expect = 0.74
Identities = 38/241 (15%), Positives = 68/241 (28%), Gaps = 108/241 (44%)
Query: 445 SGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGD-SEVQRTM 503
+ +ELV KF+G +V SS +E G +V
Sbjct: 56 TPAELVGKFLG---------YV-------------------SSLVEPSKVGQFDQV---- 83
Query: 504 LELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRIDILDPA 563
L L L FE Y L +H A+A ++ N ++
Sbjct: 84 LNLC--LTEFENC------------Y-LEGNDIH--------ALAAKLLQENDTTLV--- 117
Query: 564 LLRPGRIDRKIEFPPPNEEARLDILR--IHSRKMNLTRGINLRKIAELMPGASGAEVKGV 621
++++ I +R M R + + + L +G
Sbjct: 118 -------------------KTKELIKNYITARIM-AKRPFDKKSNSALFRAVG----EG- 152
Query: 622 CTEAGMYA--------------LRER----RVHVTQEDFEMAVAKVMQKDSEKNMSIKKL 663
A + A LR+ V V D A+ + + + +K+
Sbjct: 153 --NAQLVAIFGGQGNTDDYFEELRDLYQTYHVLV--GDLIKFSAETLSELIRTTLDAEKV 208
Query: 664 W 664
+
Sbjct: 209 F 209
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 52.5 bits (126), Expect = 4e-07
Identities = 23/168 (13%), Positives = 73/168 (43%), Gaps = 8/168 (4%)
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVL 193
++ +L+ + E+E ++LQ ++ + K++ + +++ ++++Q K ++K+L
Sbjct: 956 QMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQ------NNKLTKERKLL 1009
Query: 194 VKVHPE--GKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFK 251
+ + + +K ++ + + L K ++ ++++ + EG
Sbjct: 1010 EERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGES 1069
Query: 252 PYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+I ELQ +AE + L + + + A++ + ++
Sbjct: 1070 SDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKK 1117
Score = 43.7 bits (103), Expect = 2e-04
Identities = 41/224 (18%), Positives = 88/224 (39%), Gaps = 22/224 (9%)
Query: 87 KENKEKLQNANEG-EMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEK 145
+ K+K+Q E ++E E R + K + KI++++ +
Sbjct: 947 QAEKKKMQQQMLDLEEQLEEE-----EAARQKLQLEKVTA------DGKIKKMEDDILIM 995
Query: 146 EQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKK--VLVKVHPEGKFV 203
E +L +R L +V L L +E+ + ++ + + V++ E K
Sbjct: 996 EDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKNLTKLKNKHESMISELEVRLKKEEKSR 1055
Query: 204 VDIDKNI----DINDVTPNCRVALRNESYTLHKILPNKMD----VDEAIKSSEGFKPYYV 255
+++K + L+ + L L K + ++ K +
Sbjct: 1056 QELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNAL 1115
Query: 256 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
KI EL+ +++ +++L +A RN+ + R L EEL+ L+ +
Sbjct: 1116 KKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTE 1159
Score = 39.4 bits (92), Expect = 0.004
Identities = 38/168 (22%), Positives = 74/168 (44%), Gaps = 13/168 (7%)
Query: 133 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKV 192
K +EL+ I+ E E + + + +L A+ + +++++ L+EQ + E K +
Sbjct: 920 AKKQELEEILHEMEARIEEEEERSQQLQAEKKKMQQQMLDLEEQ---LEEEEAARQKLQ- 975
Query: 193 LVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKP 252
L KV +GK + ++ +I I + N R L + +E +
Sbjct: 976 LEKVTADGK-IKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLAEEEEKAKN----- 1029
Query: 253 YYVTKI-EELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+TK+ + + +++E E L++ + R EL R L E L EQ
Sbjct: 1030 --LTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQ 1075
Score = 32.1 bits (73), Expect = 0.82
Identities = 13/92 (14%), Positives = 35/92 (38%), Gaps = 1/92 (1%)
Query: 86 RKENKEKLQNANEGEMDVDEAYTYEVERQRT-VDEAIKSSEGFKPYYVTKIEELQLIVAE 144
++ EK++ EGE E++ Q + + E + ++E+
Sbjct: 1054 SRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNN 1113
Query: 145 KEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
+ +R L++ ++L + + ++Q
Sbjct: 1114 ALKKIRELESHISDLQEDLESEKAARNKAEKQ 1145
>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 = 50.4 bits (120), Expect = 9e-07
Identities = 44/293 (15%), Positives = 99/293 (33%), Gaps = 50/293 (17%)
Query: 383 GLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAV------AHH 436
++QI++I ++ +P + +YG GTGKT + + V
Sbjct: 24 HREDQIRKIASILA---------PLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFL 74
Query: 437 TECTFIRVSGSELVQKFIGEGSRMVRELFV-MAREHAPSIIFMDEIDSIGSSRIESGSGG 495
+ + ++ ++ + R++ +L + + + + + E+ +
Sbjct: 75 GKFKHVYINTRQIDTPY-----RVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYG-- 127
Query: 496 DSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATN 555
++ +L+++D F N + +Y L + + I TN
Sbjct: 128 -----SQVVIVLDEIDAFVKKYN------DDILYKLSR-----INSEVNKSKISFIGITN 171
Query: 556 RIDILDPAL--LRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGIN-------LRKI 606
+ +D ++ + +I FPP N E DIL ++ +
Sbjct: 172 DVKFVDLLDPRVKSSLSEEEIIFPPYNAEELEDILTKRAQMAFKPGVLPDNVIKLCAALA 231
Query: 607 AELMPGASGAEVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMS 659
A A A + +G A R + V +E MA ++ + +
Sbjct: 232 AREHGDARRA--LDLLRVSGEIAERMKDTKVKEEYVYMAKEEIERDRVRDIIL 282
>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 = 49.0 bits (116), Expect = 3e-06
Identities = 37/283 (13%), Positives = 88/283 (31%), Gaps = 36/283 (12%)
Query: 385 DNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRV 444
++ +++ I + L G GTGKT +++ + + E
Sbjct: 26 EDILRDAAIAIR---------YFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKED 76
Query: 445 SGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTML 504
+ V++ + + A + + + +
Sbjct: 77 EEYKDVKQAYVNCREVGGTPQAVLSSLAGKLTGFSVPKHGINLGEYIDKIKNGTRNIRAI 136
Query: 505 ELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRIDI---LD 561
L+++D + V +Y L +++ VIM +N I++ ++
Sbjct: 137 IYLDEVDTLVKRRGGDIV-----LYQLLRSDANIS----------VIMISNDINVRDYME 181
Query: 562 PALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGIN---LRKIAELMPGASG--A 616
P +L + + F P + E IL ++ + + L IA + G
Sbjct: 182 PRVL--SSLGPSVIFKPYDAEQLKFILSKYAEYGLIKGTYDDEILSYIAAISAKEHGDAR 239
Query: 617 EVKGVCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMS 659
+ + A A + +E + A+ Q+ + +
Sbjct: 240 KAVNLLFRAAQLASGGGI--IRKEHVDKAIVDYEQERLIEAVK 280
>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA
replication initiation, DNA BIND protein, AAA+ ATPase;
HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11
c.37.1.20 PDB: 1w5t_A*
Length = 412
Score = 46.8 bits (110), Expect = 1e-05
Identities = 33/286 (11%), Positives = 79/286 (27%), Gaps = 37/286 (12%)
Query: 385 DNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRV 444
+ + + + + + + G G GKT LA+
Sbjct: 28 RGEAEALARIYLNRLLSGAGLSDVNMI----YGSIGRVGIGKTTLAKFTV---------- 73
Query: 445 SGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTML 504
+ + EG + + I + G G+ ++ +
Sbjct: 74 --KRVSEAAAKEGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVD 131
Query: 505 ELLNQ-------LDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRI 557
L + LD F++ + + E LR +++ + ++ + +
Sbjct: 132 NLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDG--VNRIGFLLVASDV 189
Query: 558 DILDPALLRPGRI----DRKIEFPPPNEEARLDILRIHSRKMNLTRGIN---LRKIAEL- 609
L + ++ K+ P IL + L I+++
Sbjct: 190 RALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVY 249
Query: 610 --MPGASGAEVKG--VCTEAGMYALRERRVHVTQEDFEMAVAKVMQ 651
G G+ + A A R ++++ AV++
Sbjct: 250 GEDKGGDGSARRAIVALKMACEMAEAMGRDSLSEDLVRKAVSENEA 295
>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 = 45.6 bits (107), Expect = 4e-05
Identities = 43/311 (13%), Positives = 91/311 (29%), Gaps = 85/311 (27%)
Query: 385 DNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH----TECT 440
+ Q++++ ++ +++P L G PGTGKT+ R + T
Sbjct: 23 EQQLQQLDILLGNWLRNPG-------HHYPRATLLGRPGTGKTVTLRKLWELYKDKTTAR 75
Query: 441 FIRVSGSELV----------------QKFIGEGSRMVRELFV--MAREHAPSIIFMDEID 482
F+ ++G G L V + + +D+
Sbjct: 76 FVYINGFIYRNFTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAF 135
Query: 483 SIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQED 542
++ ++ T + L + D A +
Sbjct: 136 NLA-----------PDILSTFIRLGQEADKLGAFR------------------------- 159
Query: 543 FEMAVAKVIMATNRIDILDPALLRPGR--IDRKIEFPPPNEEARLDILRIHSRKMNLTRG 600
+++ + +L+ I F P ++ DIL K L G
Sbjct: 160 -----IALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDILL-DRAKAGLAEG 213
Query: 601 INLRKIAELMPGASGAEVKG------------VCTEAGMYALRERRVHVTQEDFEMAVAK 648
I +++ +GA+ + + A + R H+ ED + +
Sbjct: 214 SYSEDILQMIADITGAQTPLDTNRGDARLAIDILYRSAYAAQQNGRKHIAPEDVRKSSKE 273
Query: 649 VMQKDSEKNMS 659
V+ SE+ +
Sbjct: 274 VLFGISEEVLI 284
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 45.9 bits (109), Expect = 4e-05
Identities = 35/203 (17%), Positives = 59/203 (29%), Gaps = 75/203 (36%)
Query: 416 VLLYGPPGTGKTLLARAVAHH-TECTFIR-----------VSGSELVQKFIGEGS--RMV 461
V L GPPG K+L+AR + V G +Q EG R+
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFSTPEEVFGPLSIQALKDEGRYERLT 103
Query: 462 RELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKG 521
A I+F+DEI G + + T+L +N
Sbjct: 104 SGYLPEA-----EIVFLDEIWKAGPA-----------ILNTLLTAIN------------- 134
Query: 522 VCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRIDILDP--------ALLRPGRIDR- 572
ER+ ++ + ++ A+N AL DR
Sbjct: 135 -----------ERQFRNGAHVEKIPMRLLVAASNE-----LPEADSSLEALY-----DRM 173
Query: 573 --KIEFPPPNEEARLDILRIHSR 593
++ ++A + +
Sbjct: 174 LIRLWLDKVQDKANFRSMLTSQQ 196
>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone,
hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*
Length = 310
Score = 45.0 bits (107), Expect = 4e-05
Identities = 33/106 (31%), Positives = 49/106 (46%), Gaps = 12/106 (11%)
Query: 412 QPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQ-KFIG--EGSRMVRELFVM- 467
PK +L+ GP G GKT +AR +A FI+V ++ + ++G S +
Sbjct: 49 TPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAG 108
Query: 468 -AREHAPS--IIFMDEIDSIGSSRIESGSGGDSE---VQRTMLELL 507
A + I+F+DEID I SG D VQR +L L+
Sbjct: 109 GAIDAVEQNGIVFIDEIDKICKK--GEYSGADVSREGVQRDLLPLV 152
>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 = 42.6 bits (100), Expect = 1e-04
Identities = 11/35 (31%), Positives = 19/35 (54%)
Query: 409 GIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIR 443
G+ P +++ G P TGKT L++A+A +
Sbjct: 1 GMQTPALIIVTGHPATGKTTLSQALATGLRLPLLS 35
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 40.8 bits (96), Expect = 5e-04
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 410 IAQPKGVLLYGPPGTGKTLLARAVAHH 436
+ KG+ L+G G GKT L A+A+
Sbjct: 51 GKKMKGLYLHGSFGVGKTYLLAAIANE 77
>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 = 40.1 bits (94), Expect = 7e-04
Identities = 11/25 (44%), Positives = 13/25 (52%)
Query: 412 QPKGVLLYGPPGTGKTLLARAVAHH 436
+ KG+ G PG GKT LA A
Sbjct: 37 EGKGLTFVGSPGVGKTHLAVATLKA 61
>2v1u_A Cell division control protein 6 homolog; DNA replication,
nucleotide-binding, replication, archaea; HET: ADP;
3.10A {Aeropyrum pernix}
Length = 387
Score = 41.3 bits (96), Expect = 8e-04
Identities = 50/295 (16%), Positives = 105/295 (35%), Gaps = 49/295 (16%)
Query: 383 GLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFI 442
+ +++ + EV+ AL +P LLYG GTGKT +AR V
Sbjct: 23 HREAELRRLAEVLA---------PALRGEKPSNALLYGLTGTGKTAVARLVLRR------ 67
Query: 443 RVSGSELVQKFIGEGSRMVRELFVMAREHA-PSIIFMDEIDSIGSSRIESGSGGD----- 496
++ +V+ ++V AR P + +++G +G
Sbjct: 68 -------LEARASSLGVLVKPIYVNARHRETPYRVASAIAEAVGVRVPFTGLSVGEVYER 120
Query: 497 -----SEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVI 551
S ++ + +L+++D + + +Y + + QE + ++
Sbjct: 121 LVKRLSRLRGIYIIVLDEIDFLPKRPGGQDL-----LYRITR----INQELGDRVWVSLV 171
Query: 552 MATNRIDILDPAL--LRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLTRGIN---LRKI 606
TN + ++ ++ + ++ FPP DIL + + ++ +
Sbjct: 172 GITNSLGFVENLEPRVKSSLGEVELVFPPYTAPQLRDILETRAEEAFNPGVLDPDVVPLC 231
Query: 607 AELMPGASGAEVKG--VCTEAGMYALRERRVHVTQEDFEMAVAKVMQKDSEKNMS 659
A L G + + AG A R R V +E A A++ + + +
Sbjct: 232 AALAAREHGDARRALDLLRVAGEIAERRREERVRREHVYSARAEIERDRVSEVVR 286
>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 = 40.9 bits (96), Expect = 0.001
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 415 GVLLYGPPGTGKTLLARAVA 434
GVL++G GTGK+ RA+A
Sbjct: 47 GVLVFGDRGTGKSTAVRALA 66
>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 = 39.9 bits (94), Expect = 0.001
Identities = 25/79 (31%), Positives = 37/79 (46%), Gaps = 17/79 (21%)
Query: 417 LLYGPPGTGKTLLARAVAH-----HTECTFIRVSGSELVQKFIGEGSRMVRE---LFVMA 468
L GPPGTGKT A A+A + FI ++ S+ ++ I +VR F
Sbjct: 42 LFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD--ERGID----VVRHKIKEFART 95
Query: 469 REHAPS---IIFMDEIDSI 484
+ IIF+DE D++
Sbjct: 96 APIGGAPFKIIFLDEADAL 114
>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 = 40.6 bits (96), Expect = 0.001
Identities = 14/28 (50%), Positives = 19/28 (67%)
Query: 418 LYGPPGTGKTLLARAVAHHTECTFIRVS 445
L GPPG GKT LA+++A F+R+S
Sbjct: 113 LAGPPGVGKTSLAKSIAKSLGRKFVRIS 140
>3rrk_A V-type ATPase 116 kDa subunit; alpha beta fold, proton pump,
subunit I/A, V-ATPase, proton; HET: NHE; 2.64A
{Meiothermus ruber}
Length = 357
Score = 40.5 bits (94), Expect = 0.001
Identities = 27/219 (12%), Positives = 70/219 (31%), Gaps = 16/219 (7%)
Query: 93 LQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGF----KPYYVTKIEELQLIVAEKEQN 148
+ E+ E + + + +E V + + E E
Sbjct: 41 IDPLRPDELGEYRLSPTEEAELKRWEAVVSQAEQSLTVVGLATVPSSKPFTGSLEEAEAV 100
Query: 149 LRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEV------VKPMDKKKVLVKVHPEGKF 202
LR + ++ L + L EE+Q ++ G ++ + + V+ + + +
Sbjct: 101 LRPVASRAEVLGKERAALEEEIQTIELFGKAAEKLAALAHGLDESPRLGVIPFLVAKPEE 160
Query: 203 VVDIDKNI--DINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEE 260
+ + K + + D L N+ L + ++++ + S G
Sbjct: 161 LEAVRKALQEALADRFVLEAEPLENQLAALVVVKRSELEAARSSLSRLGLAELRFPGAYG 220
Query: 261 LQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+ R++ + ++ +REE+ L +
Sbjct: 221 A----MPLGKAAARMKERARLAPEELVGIREEVARLSRE 255
Score = 29.3 bits (65), Expect = 4.7
Identities = 17/90 (18%), Positives = 34/90 (37%)
Query: 212 INDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQN 271
I+ + P+ R ++ + V +A +S V + + E E
Sbjct: 41 IDPLRPDELGEYRLSPTEEAELKRWEAVVSQAEQSLTVVGLATVPSSKPFTGSLEEAEAV 100
Query: 272 LRRLQAQRNELNAKVRMLREELQLLQEQGS 301
LR + ++ L + L EE+Q ++ G
Sbjct: 101 LRPVASRAEVLGKERAALEEEIQTIELFGK 130
>2r44_A Uncharacterized protein; putative ATPase, structural genomics,
joint center for struc genomics, JCSG; HET: MSE PG4;
2.00A {Cytophaga hutchinsonii atcc 33406}
Length = 331
Score = 40.2 bits (95), Expect = 0.002
Identities = 19/79 (24%), Positives = 33/79 (41%), Gaps = 5/79 (6%)
Query: 368 MMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKG--VLLYGPPGTG 425
M ++ + + + I E+ +V+ V + + L I G +LL G PG
Sbjct: 2 MELKSAEEKSLYYRNKIKEVIDEVGKVV---VGQKYMINRLLIGICTGGHILLEGVPGLA 58
Query: 426 KTLLARAVAHHTECTFIRV 444
KTL +A + F R+
Sbjct: 59 KTLSVNTLAKTMDLDFHRI 77
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 39.4 bits (92), Expect = 0.003
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 403 ELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 436
+ + A+ KG+ LYG G GK+ L A+AH
Sbjct: 142 DFVEQYPSAEQKGLYLYGDMGIGKSYLLAAMAHE 175
>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET:
ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*
Length = 368
Score = 38.8 bits (90), Expect = 0.004
Identities = 61/297 (20%), Positives = 102/297 (34%), Gaps = 53/297 (17%)
Query: 379 EMVG------GLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLAR- 431
MVG ++ I+E L G PGTGKT +A
Sbjct: 45 GMVGQLAARRAAGVVLEMIREGKI--AGRAVLIA-------------GQPGTGKTAIAMG 89
Query: 432 -AVAHHTECTFIRVSGSELVQKFIGEGSR----MVRELFVMAREHAPSIIFMDEIDSIGS 486
A A + F ++GSE+ + + R + V + A + + EID I S
Sbjct: 90 MAQALGPDTPFTAIAGSEIFSLEMSKTEALTQAFRRSIGVRIKAGAVHTVSLHEIDVINS 149
Query: 487 SRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCT-EAGMYALRERRVHV-TQEDF- 543
+ + E+ Q++ A +G G+ + E VH+ E F
Sbjct: 150 RTQGFLALFSGDTGEIKSEVREQINAKVAEWREEGKAEIIPGVLFIDE--VHMLDIESFS 207
Query: 544 ------EMAVAKV-IMATNRI-------DILDPALLRPGRIDR--KIEFPPPNEEARLDI 587
E +A V IMATNR P + +DR + P +E+ I
Sbjct: 208 FLNRALESDMAPVLIMATNRGITRIRGTSYQSPHGIPIDLLDRLLIVSTTPYSEKDTKQI 267
Query: 588 LRIHSRKMNLTRGIN-LRKIAELMPGASGAEVKGVC--TEAGMYALRERRVHVTQED 641
LRI + ++ + + + G + + T A + + + V +D
Sbjct: 268 LRIRCEEEDVEMSEDAYTVLTRI--GLETSLRYAIQLITAASLVCRKRKGTEVQVDD 322
>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 = 38.5 bits (90), Expect = 0.005
Identities = 23/78 (29%), Positives = 37/78 (47%), Gaps = 17/78 (21%)
Query: 417 LLYGPPGTGKTLLARAVAH-----HTECTFIRVSGSELVQKFIGEGSRMVREL---FVMA 468
L GPPG GKT A A+A + F+ ++ S+ ++ I ++RE F
Sbjct: 50 LFAGPPGVGKTTAALALARELFGENWRHNFLELNASD--ERGIN----VIREKVKEFART 103
Query: 469 REHAPS---IIFMDEIDS 483
+ + IIF+DE D+
Sbjct: 104 KPIGGASFKIIFLDEADA 121
>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 = 0.005
Identities = 11/39 (28%), Positives = 19/39 (48%)
Query: 411 AQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSEL 449
+LL G PG+GK+ +A A+A+ + +L
Sbjct: 7 LGGNILLLSGHPGSGKSTIAEALANLPGVPKVHFHSDDL 45
>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 = 38.1 bits (89), Expect = 0.006
Identities = 25/78 (32%), Positives = 36/78 (46%), Gaps = 17/78 (21%)
Query: 417 LLYGPPGTGKTLLARAVAH-----HTECTFIRVSGSELVQKFIGEGSRMVRE---LFVMA 468
L GPPGTGKT A A+A + FI ++ S+ ++ I +VR F
Sbjct: 42 LFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD--ERGID----VVRHKIKEFART 95
Query: 469 REHAPS---IIFMDEIDS 483
+ IIF+DE D+
Sbjct: 96 APIGGAPFKIIFLDEADA 113
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 38.9 bits (91), Expect = 0.007
Identities = 35/219 (15%), Positives = 72/219 (32%), Gaps = 44/219 (20%)
Query: 86 RKENKEKLQNANEGEMDVDEAYTYEVERQ-----RTVDEAIKSSEGFKPYYVTKIEELQL 140
R L+ + ++ R+V+ K G + KI +LQ
Sbjct: 880 RVHYHRTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLE----NKIMQLQR 935
Query: 141 IVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEG 200
+ E+ + + L + N L E+L+ E + +
Sbjct: 936 KIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVE------------RLRMSEEEAKNAT 983
Query: 201 KFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEE 260
V+ + + I LR E LH+ K ++E + E
Sbjct: 984 NRVLSLQEEIA----------KLRKE---LHQTQTEKKTIEEWADKYK----------HE 1020
Query: 261 LQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+ +V+E ++ L+ ++ ELN ++ +E+ E+
Sbjct: 1021 TEQLVSELKEQNTLLKTEKEELNRRIHDQAKEITETMEK 1059
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function
initiative, EFI, STRU genomics, transferase; 1.60A
{Janibacter SP}
Length = 200
Score = 37.4 bits (86), Expect = 0.007
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 412 QPKGVLLYGPPGTGKTLLARAVAHHTECTFIRV 444
+ V++ G G+GKT +A VA T F
Sbjct: 28 PTRHVVVMGVSGSGKTTIAHGVADETGLEFAEA 60
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 37.1 bits (85), Expect = 0.009
Identities = 15/76 (19%), Positives = 28/76 (36%), Gaps = 18/76 (23%)
Query: 86 RKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEK 145
R+E +++LQ E+D +V Q ++A K E + ++E+ K
Sbjct: 91 REEQRKRLQ-----ELDAAS----KVMEQEWREKAKKDLEEWNQRQSEQVEK------NK 135
Query: 146 EQNLRR---LQAQRNE 158
N Q +
Sbjct: 136 INNRIADKAFYQQPDA 151
Score = 27.8 bits (61), Expect = 8.9
Identities = 13/75 (17%), Positives = 32/75 (42%), Gaps = 3/75 (4%)
Query: 136 EELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVK 195
+E + I +E+ +RLQ + RE+ + ++ + + ++K K+ +
Sbjct: 82 QEPESIRKWREEQRKRLQELDAASKVMEQEWREKAK--KDLEEWNQRQSEQVEKNKINNR 139
Query: 196 VHPEGKFVVDIDKNI 210
+ + F D +I
Sbjct: 140 IADK-AFYQQPDADI 153
Score = 27.8 bits (61), Expect = 8.9
Identities = 13/75 (17%), Positives = 32/75 (42%), Gaps = 3/75 (4%)
Query: 259 EELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVK 318
+E + I +E+ +RLQ + RE+ + ++ + + ++K K+ +
Sbjct: 82 QEPESIRKWREEQRKRLQELDAASKVMEQEWREKAK--KDLEEWNQRQSEQVEKNKINNR 139
Query: 319 VHPEGKFVVDIDKNI 333
+ + F D +I
Sbjct: 140 IADK-AFYQQPDADI 153
>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 = 37.5 bits (88), Expect = 0.010
Identities = 13/20 (65%), Positives = 16/20 (80%)
Query: 416 VLLYGPPGTGKTLLARAVAH 435
+LL+GPPG GKT LA +AH
Sbjct: 41 LLLFGPPGLGKTTLAHVIAH 60
>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 = 37.5 bits (88), Expect = 0.011
Identities = 13/20 (65%), Positives = 14/20 (70%)
Query: 416 VLLYGPPGTGKTLLARAVAH 435
VLL GPPG GKT LA +A
Sbjct: 54 VLLAGPPGLGKTTLAHIIAS 73
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 37.5 bits (88), Expect = 0.011
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 416 VLLYGPPGTGKTLLARAVAH 435
+L GP G GKT LA +++
Sbjct: 58 ILFSGPAGLGKTTLANIISY 77
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 37.0 bits (86), Expect = 0.020
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 408 LGIAQPKGVLLYGPPGTGKTLLARAVA 434
Q + VLL G PGTGK++L +A+A
Sbjct: 55 TAANQKRHVLLIGEPGTGKSMLGQAMA 81
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure
initiati YORK structural genomics research consortium,
nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 35.8 bits (82), Expect = 0.020
Identities = 9/33 (27%), Positives = 16/33 (48%)
Query: 411 AQPKGVLLYGPPGTGKTLLARAVAHHTECTFIR 443
P +++ G G+GK+ + A+A FI
Sbjct: 16 RFPGSIVVMGVSGSGKSSVGEAIAEACGYPFIE 48
>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 = 36.0 bits (82), Expect = 0.035
Identities = 13/73 (17%), Positives = 23/73 (31%), Gaps = 11/73 (15%)
Query: 363 PLVSLMMVEKVPDSTY--EMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYG 420
P + + E + +S E++ I I D+L +Q K +
Sbjct: 2 PNADINLEESIRESLQKRELLKSQVEDFTRIFLPIY---------DSLMSSQNKLFYITN 52
Query: 421 PPGTGKTLLARAV 433
+ K L V
Sbjct: 53 ADDSTKFQLVNDV 65
>1c1g_A Tropomyosin; contractIle protein; 7.00A {Sus scrofa} SCOP: h.1.5.1
PDB: 2tma_A 2w49_A 2w4u_A
Length = 284
Score = 35.4 bits (81), Expect = 0.049
Identities = 30/213 (14%), Positives = 84/213 (39%), Gaps = 11/213 (5%)
Query: 87 KENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKE 146
K+ +EKL+ A + D + R + +E + ++ + K+EE + E E
Sbjct: 65 KDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAADESE 124
Query: 147 QNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDI 206
+ ++ ++++ + K+ + +L+ + + + +K V+++ D+
Sbjct: 125 RGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIES--------DL 176
Query: 207 DKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQLIVA 266
++ + +++ L E + + N ++ + + Y +I+ L +
Sbjct: 177 ERAEERAELSEGKCAELEEE---IKTVTNNLKSLEAQAEKYSQKEDKYEEEIKVLSDKLK 233
Query: 267 EKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
E E + +L + L +EL + +
Sbjct: 234 EAETRAEFAERSVTKLEKSIDDLEDELYAQKLK 266
Score = 31.9 bits (72), Expect = 0.51
Identities = 23/166 (13%), Positives = 57/166 (34%), Gaps = 4/166 (2%)
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVL 193
+ +E + E ++L+ + L K++ +EL E E ++ +KK
Sbjct: 21 RADEAEADKKAAEDRSKQLEDELVSLQKKLKATEDELDKYSEALKDAQEKLELAEKKATD 80
Query: 194 VKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPY 253
E + + + L L + + + +K E
Sbjct: 81 A----EADVASLNRRIQLFEEELDRAQERLATALQKLEEAEKAADESERGMKVIESRAQK 136
Query: 254 YVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
K+E ++ + E + + E+ K+ ++ +L+ +E+
Sbjct: 137 DEEKMEIQEIQLKEAKHIAEDADRKYEEVARKLVIIESDLERAEER 182
Score = 29.2 bits (65), Expect = 3.8
Identities = 20/166 (12%), Positives = 55/166 (33%), Gaps = 4/166 (2%)
Query: 134 KIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVL 193
++ LQ + E L + + K+ + ++ + + + ++ +++
Sbjct: 42 ELVSLQKKLKATEDELDKYSEALKDAQEKLELAEKKATDAEADVASLNRRIQLFEEELDR 101
Query: 194 VKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPY 253
+ + ++ +V K+ ++ + EA +E
Sbjct: 102 AQERLATALQKLEEAEKAADESERGMKVIESRAQKDEEKMEIQEIQLKEAKHIAEDAD-- 159
Query: 254 YVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
K EE+ + E +L R + + K L EE++ +
Sbjct: 160 --RKYEEVARKLVIIESDLERAEERAELSEGKCAELEEEIKTVTNN 203
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 34.0 bits (79), Expect = 0.056
Identities = 10/18 (55%), Positives = 12/18 (66%)
Query: 416 VLLYGPPGTGKTLLARAV 433
V LYG PGTG+ AR +
Sbjct: 27 VWLYGAPGTGRMTGARYL 44
>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 = 35.7 bits (82), Expect = 0.057
Identities = 26/157 (16%), Positives = 46/157 (29%), Gaps = 52/157 (33%)
Query: 405 FDAL---GIAQPKGVLLYGPPGTGKTLLA------RAVAHHTECTFIRVSGSELVQKFIG 455
FD + G+ + L+ G GTGKTL + + F V+ E Q I
Sbjct: 28 FDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVF--VTFEETPQDIIK 85
Query: 456 EGSRM------------------------------------VRELFVMAREHAPSIIFMD 479
+ + +++ +
Sbjct: 86 NARSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERINYAIQKYRARRVS-- 143
Query: 480 EIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEAT 516
IDS+ + + S V+R + L+ +L AT
Sbjct: 144 -IDSV--TSVFQQYDASSVVRRELFRLVARLKQIGAT 177
Score = 35.3 bits (81), Expect = 0.065
Identities = 24/171 (14%), Positives = 48/171 (28%), Gaps = 31/171 (18%)
Query: 375 DSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKG--VLLYGPPGTGKTLLARA 432
D + ++ + + + L + G K +L G GTGKTLL
Sbjct: 241 DHGINIFPLGAMRLTQRSSNVRVSSGVVRLDEMCGGGFFKDSIILATGATGTGKTLLVSR 300
Query: 433 VAHH---TECTFIRVSGSELVQKFIGEGSRM-----------------VRELFVMAREHA 472
+ + I + E + + +H
Sbjct: 301 FVENACANKERAILFAYEESRAQLLRNAYSWGMDFEEMERQNLLKIVCAYPESAGLEDHL 360
Query: 473 PSIIFMDEIDSIGSSR--IES-----GSGGDSEVQRTMLELLNQLDGFEAT 516
I EI+ +R I+S ++ ++ ++ + E T
Sbjct: 361 QIIK--SEINDFKPARIAIDSLSALARGVSNNAFRQFVIGVTGYAKQEEIT 409
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 33.8 bits (78), Expect = 0.060
Identities = 9/37 (24%), Positives = 17/37 (45%)
Query: 400 KHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 436
++ EL L + + ++G G GK+ L +A
Sbjct: 23 ENAELVYVLRHKHGQFIYVWGEEGAGKSHLLQAWVAQ 59
>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 = 35.4 bits (81), Expect = 0.060
Identities = 22/114 (19%), Positives = 41/114 (35%), Gaps = 20/114 (17%)
Query: 404 LFDAL-----GIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGS 458
++D L I + + L GP +GKT LA A+ + V+
Sbjct: 155 VYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLELCGGKALNVNLP----------- 203
Query: 459 RMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDG 512
+ R F + ++ +++ G + SG + + L + LDG
Sbjct: 204 -LDRLNFELGVAIDQFLVVFEDVKGTGGESRDLPSG---QGINNLDNLRDYLDG 253
>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase
activation, cytochrome C, procaspase-9, A nucleotide,
cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A*
3iyt_A* 3iza_A*
Length = 1249
Score = 35.6 bits (82), Expect = 0.071
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 412 QPKGVLLYGPPGTGKTLLARAVAHHTE 438
+P V +YG G GK++LA
Sbjct: 146 EPGWVTIYGMAGCGKSVLAAEAVRDHS 172
>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 = 34.0 bits (77), Expect = 0.074
Identities = 5/30 (16%), Positives = 12/30 (40%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVS 445
++L G GK+ + R + ++
Sbjct: 6 IILNGGSSAGKSGIVRCLQSVLPEPWLAFG 35
>3tnu_B Keratin, type II cytoskeletal 5; coiled-coil, structural support,
cytosolic protein; 3.00A {Homo sapiens}
Length = 129
Score = 33.3 bits (77), Expect = 0.079
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 130 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
+Y TK EELQ +LR + + +E+N ++ LR E+ +++Q
Sbjct: 12 WYQTKYEELQQTAGRHGDDLRNTKHEISEMNRMIQRLRAEIDNVKKQ 58
Score = 33.3 bits (77), Expect = 0.079
Identities = 15/47 (31%), Positives = 27/47 (57%)
Query: 253 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+Y TK EELQ +LR + + +E+N ++ LR E+ +++Q
Sbjct: 12 WYQTKYEELQQTAGRHGDDLRNTKHEISEMNRMIQRLRAEIDNVKKQ 58
>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 = 34.7 bits (79), Expect = 0.085
Identities = 31/221 (14%), Positives = 78/221 (35%), Gaps = 20/221 (9%)
Query: 398 PVKHPELF-------DALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRV------ 444
P + + F + L + L+ G TGK+ + + + +I +
Sbjct: 8 PKDNRKDFFDREKEIEKLKGLRAPITLVLGLRRTGKSSIIKIGINELNLPYIYLDLRKFE 67
Query: 445 -SGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTM 503
+ F+ E + + +L ++ + I +G+ + + D +
Sbjct: 68 ERNYISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANL 127
Query: 504 LELLNQLDGFEAT------KNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVIMATNRI 557
LE Q + + + + AL ++ + F M+ +++ + + +
Sbjct: 128 LESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAYAYDNLKRIKFIMSGSEMGLLYDYL 187
Query: 558 DILDPALLRPGRIDRKIEFPPPNEEARLDILRIHSRKMNLT 598
+ DP GR +E P + E ++ LR ++ ++
Sbjct: 188 RVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADID 228
>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A
{Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A
1ko5_A* 1ko8_A* 1kof_A*
Length = 175
Score = 33.9 bits (77), Expect = 0.088
Identities = 10/32 (31%), Positives = 15/32 (46%)
Query: 412 QPKGVLLYGPPGTGKTLLARAVAHHTECTFIR 443
+L G G+GK+ +A VAH F+
Sbjct: 7 DHHIYVLMGVSGSGKSAVASEVAHQLHAAFLD 38
>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 = 34.7 bits (80), Expect = 0.089
Identities = 7/23 (30%), Positives = 11/23 (47%)
Query: 417 LLYGPPGTGKTLLARAVAHHTEC 439
L+ PG G L A++ + C
Sbjct: 28 LIQALPGMGDDALIYALSRYLLC 50
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay,
zinc-finger, ATP-binding, metal-BIN UPF2, UPF1,
helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A
2iyk_A
Length = 800
Score = 34.5 bits (79), Expect = 0.11
Identities = 47/303 (15%), Positives = 108/303 (35%), Gaps = 65/303 (21%)
Query: 205 DIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSSEGFKPYYVTKIEELQLI 264
I+K ++ P+ + + + + ++A + F P K+E
Sbjct: 147 QINKLEELWKENPSATLEDLEKPGVDEEPQHVLLRYEDAYQYQNIFGPLV--KLEADYDK 204
Query: 265 VAEKEQNLRRLQ--------------AQRNELNAKVRMLREELQLLQEQGS------YVG 304
++ Q + + ++ +R+++ + L+ +G +G
Sbjct: 205 KLKESQTQDNITVRWDLGLNKKRIAYFTLPKTDSDMRLMQGDEICLRYKGDLAPLWKGIG 264
Query: 305 EVVKPMDKKKVLVKVHPEGKFVVDIDKNIDIN-DVTPN------CRVALRN--------E 349
V+K D + + ++ + D + AL+
Sbjct: 265 HVIKVPDNYGDEIAIELRSSVGAPVEVTHNFQVDFVWKSTSFDRMQSALKTFAVDETSVS 324
Query: 350 SYTLHKILPNKVDPLVSLMMVEKVPDSTYEMVGGLDN-QIKEIKEVIELPVKHPELFDAL 408
Y HK+L ++V+ ++ + K T + + L++ Q+ +K V++ P+
Sbjct: 325 GYIYHKLLGHEVEDVIIKCQLPK--RFTAQGLPDLNHSQVYAVKTVLQRPL--------- 373
Query: 409 GIAQPKGVLLYGPPGTGKTLLARAVAHHTE---------CTFIRVSGSELVQKFIGEGSR 459
L+ GPPGTGKT+ + + +H C ++ +L +K G +
Sbjct: 374 -------SLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIHQTGLK 426
Query: 460 MVR 462
+VR
Sbjct: 427 VVR 429
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 33.9 bits (78), Expect = 0.14
Identities = 23/115 (20%), Positives = 41/115 (35%), Gaps = 14/115 (12%)
Query: 405 FDAL---GIAQPKG--VLLYGPPGTGKTLLA-----RAVAHHTECTFIRVSGSELVQKFI 454
D + GI P+ VLL G PGTGKT+ + + + V+ E +
Sbjct: 12 VDEILHGGI--PERNVVLLSGGPGTGKTIFSQQFLWNGLKMGEPGIY--VALEEHPVQVR 67
Query: 455 GEGSRMVRELFVMAREHAPSIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQ 509
++ ++ + +++ S E D R +E+L Q
Sbjct: 68 QNMAQFGWDVKPYEEKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREFIEVLRQ 122
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD,
hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A*
2gk7_A 2xzo_A* 2xzp_A
Length = 624
Score = 34.4 bits (79), Expect = 0.14
Identities = 34/188 (18%), Positives = 68/188 (36%), Gaps = 35/188 (18%)
Query: 296 LQEQGSYVGEVVKPMDKKK--VLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTL 353
L +G V+K D + +++ V++ N + D + L
Sbjct: 80 LAPLWKGIGHVIKVPDNYGDEIAIELRSSVGAPVEVTHNFQV-DFVWK-STSFDRMQSAL 137
Query: 354 HKILPNKVDPLVSLMMVEKVPDSTYEMVGGLDNQIKEIKEVIELPVK-----HPELFDA- 407
V++ S Y L ++++++ +LP + P+L +
Sbjct: 138 KT------------FAVDETSVSGYIYHKLLGHEVEDVIIKCQLPKRFTAQGLPDLNHSQ 185
Query: 408 ----LGIAQPKGVLLYGPPGTGKTLLARAVAHHTE---------CTFIRVSGSELVQKFI 454
+ Q L+ GPPGTGKT+ + + +H C ++ +L +K
Sbjct: 186 VYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLARQGNGPVLVCAPSNIAVDQLTEKIH 245
Query: 455 GEGSRMVR 462
G ++VR
Sbjct: 246 QTGLKVVR 253
>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 = 0.16
Identities = 8/21 (38%), Positives = 11/21 (52%)
Query: 416 VLLYGPPGTGKTLLARAVAHH 436
L P G GK++LA +A
Sbjct: 33 GALVSPGGAGKSMLALQLAAQ 53
>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 = 33.1 bits (75), Expect = 0.17
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVS 445
+LL G PG GKT L + +A + +I V
Sbjct: 14 ILLTGTPGVGKTTLGKELASKSGLKYINVG 43
>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 = 34.1 bits (78), Expect = 0.17
Identities = 19/98 (19%), Positives = 39/98 (39%), Gaps = 14/98 (14%)
Query: 399 VKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH------TECTFIRVSGSELVQK 452
+H ++ A +++ + ++L GPPG+GKT+ + F + EL+ K
Sbjct: 1291 TRHVDVLHAW-LSEHRPLILCGPPGSGKTMTLTSTLRAFPDFEVVSLNFSSATTPELLLK 1349
Query: 453 FIGEGSRMVRELFVMAREHAPS------IIFMDEIDSI 484
+ + P+ ++F DEI+
Sbjct: 1350 TF-DHHCEYKRTPSGETVLRPTQLGKWLVVFCDEINLP 1386
Score = 30.3 bits (68), Expect = 3.3
Identities = 17/154 (11%), Positives = 57/154 (37%), Gaps = 1/154 (0%)
Query: 255 VTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKK 314
+ K+ + + V + + +L + + + N + +++ Q+ + + + +
Sbjct: 1926 LKKLRDTEAQVKDLQVSLAQKNRELDVKNEQANQKLKQMVQDQQAAEIKQKDARE-LQVQ 1984
Query: 315 VLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKVP 374
+ V+ V +++ + T R + +++ + + + ++ +EK
Sbjct: 1985 LDVRNKEIAVQKVKAYADLEKAEPTGPLREEVEQLENAANELKLKQDEIVATITALEKSI 2044
Query: 375 DSTYEMVGGLDNQIKEIKEVIELPVKHPELFDAL 408
+ E L + ++IK + AL
Sbjct: 2045 ATYKEEYATLIRETEQIKTESSKVKNKVDRSIAL 2078
Score = 29.5 bits (66), Expect = 4.6
Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 7/72 (9%)
Query: 410 IAQPKG-VLLYGPPGTGKTLLARAVAH--HTECTFIRVSGSELVQKFIGEGSRMVRELFV 466
QP+G LL G G GK++L+R VA I+V+ + F + +R L
Sbjct: 1642 FRQPQGHALLIGVSGGGKSVLSRFVAWMNGLSIYTIKVNNNYKSSDFDDD----LRMLLK 1697
Query: 467 MAREHAPSIIFM 478
A I F+
Sbjct: 1698 RAGCKEEKICFI 1709
>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta
protein., structural genomics, PSI-2, protein structure
initiative; HET: G3D; 2.20A {Bacillus subtilis} PDB:
2axp_A*
Length = 173
Score = 32.8 bits (75), Expect = 0.17
Identities = 6/27 (22%), Positives = 13/27 (48%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFI 442
++L GP K+ +A ++ + I
Sbjct: 4 IILEGPDCCFKSTVAAKLSKELKYPII 30
>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A
{Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*
Length = 287
Score = 33.4 bits (75), Expect = 0.17
Identities = 15/65 (23%), Positives = 22/65 (33%), Gaps = 4/65 (6%)
Query: 385 DNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRV 444
D Q + + + P LL G PG+GKT L A+ T+ I +
Sbjct: 9 DKQFENRLN----DNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNVIVI 64
Query: 445 SGSEL 449
Sbjct: 65 DNDTF 69
>3co5_A Putative two-component system transcriptional RES regulator;
structural genomics, APC89341.1; 2.40A {Neisseria
gonorrhoeae}
Length = 143
Score = 32.5 bits (75), Expect = 0.17
Identities = 8/36 (22%), Positives = 14/36 (38%), Gaps = 2/36 (5%)
Query: 403 ELFDALGIAQPKG--VLLYGPPGTGKTLLARAVAHH 436
E+ + A + V L G G+ +AR +
Sbjct: 15 EMNREVEAAAKRTSPVFLTGEAGSPFETVARYFHKN 50
>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 = 33.0 bits (75), Expect = 0.27
Identities = 10/27 (37%), Positives = 16/27 (59%)
Query: 409 GIAQPKGVLLYGPPGTGKTLLARAVAH 435
GI + + GPP TGK++L ++ H
Sbjct: 122 GIPKKNCLAFIGPPNTGKSMLCNSLIH 148
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 32.7 bits (75), Expect = 0.28
Identities = 19/66 (28%), Positives = 29/66 (43%), Gaps = 14/66 (21%)
Query: 405 FDAL---GIAQPKG--VLLYGPPGTGKTLLA-----RAVAHHTECTFIRVSGSELVQKFI 454
FD L GI P+G + L G PGTGKT+ + + + C + V+ E I
Sbjct: 12 FDKLIQGGI--PQGFFIALTGEPGTGKTIFSLHFIAKGLRDGDPCIY--VTTEESRDSII 67
Query: 455 GEGSRM 460
+ +
Sbjct: 68 RQAKQF 73
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL
helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 32.6 bits (73), Expect = 0.29
Identities = 11/70 (15%), Positives = 20/70 (28%)
Query: 384 LDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIR 443
+ + + QP +LL G G GKT + R + +
Sbjct: 3 IQDYTDSEFKHALARNLRSLTRGKKSSKQPIAILLGGQSGAGKTTIHRIKQKEFQGNIVI 62
Query: 444 VSGSELVQKF 453
+ G +
Sbjct: 63 IDGDSFRSQH 72
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 32.6 bits (74), Expect = 0.36
Identities = 14/29 (48%), Positives = 15/29 (51%), Gaps = 3/29 (10%)
Query: 405 FDAL---GIAQPKGVLLYGPPGTGKTLLA 430
FD L G + VLL G GTGKT A
Sbjct: 19 FDELIEGGFPEGTTVLLTGGTGTGKTTFA 47
>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 = 32.4 bits (74), Expect = 0.40
Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 17/80 (21%)
Query: 416 VLLYGPPGTGKTLLARAVAH-----HTECTFIRVSGSELVQKFIGEGSRMVRE---LFVM 467
+L YGPPGTGKT A+A + + ++ S+ + I +VR F
Sbjct: 49 LLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASD--DRGID----VVRNQIKDFAS 102
Query: 468 AREHAPS---IIFMDEIDSI 484
R+ +I +DE D++
Sbjct: 103 TRQIFSKGFKLIILDEADAM 122
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 32.8 bits (74), Expect = 0.41
Identities = 26/124 (20%), Positives = 48/124 (38%), Gaps = 18/124 (14%)
Query: 86 RKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEK 145
K + ++ + TYE +R + E K E + +V +++E + + E
Sbjct: 301 CKLEEMGFKDTDPDSKPFSLQETYEAKRNEFLGELQKKEEEMRQMFVQRVKEKEAELKEA 360
Query: 146 EQNLRR--------LQAQRNELNAKVRMLREEL----------QLLQEQGSYVGEVVKPM 187
E+ L Q ++ +L K + L +E+ +LLQ QGS G
Sbjct: 361 EKELHEKFDRLKKLHQDEKKKLEDKKKSLDDEVNAFKQRKTAAELLQSQGSQAGGSQTLK 420
Query: 188 DKKK 191
K+
Sbjct: 421 RDKE 424
>3tnu_A Keratin, type I cytoskeletal 14; coiled-coil, structural support,
cytosolic protein; 3.00A {Homo sapiens}
Length = 131
Score = 31.0 bits (71), Expect = 0.42
Identities = 13/47 (27%), Positives = 24/47 (51%)
Query: 130 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
++ TK EEL VA + ++ +++ +EL ++ L ELQ
Sbjct: 14 WFFTKTEELNREVATNSELVQSGKSEISELRRTMQNLEIELQSQLSM 60
Score = 31.0 bits (71), Expect = 0.42
Identities = 13/47 (27%), Positives = 24/47 (51%)
Query: 253 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
++ TK EEL VA + ++ +++ +EL ++ L ELQ
Sbjct: 14 WFFTKTEELNREVATNSELVQSGKSEISELRRTMQNLEIELQSQLSM 60
>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 = 32.3 bits (74), Expect = 0.42
Identities = 23/76 (30%), Positives = 34/76 (44%), Gaps = 13/76 (17%)
Query: 416 VLLYGP-PGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRE---LFVMAREH 471
++L+ P PGTGKT +A+A+ H + V+GS+ VR F A
Sbjct: 50 IILHSPSPGTGKTTVAKALCHDVNADMMFVNGSD-------CKIDFVRGPLTNFASAASF 102
Query: 472 APS--IIFMDEIDSIG 485
+I +DE D G
Sbjct: 103 DGRQKVIVIDEFDRSG 118
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 32.4 bits (73), Expect = 0.43
Identities = 29/189 (15%), Positives = 62/189 (32%), Gaps = 8/189 (4%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAPSI 475
LL G GK+ L RA + I + I +++EL
Sbjct: 34 TLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITR-EELIKELQSTISPFQKFQ 92
Query: 476 IFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQ-------LDGFEATKNIKGVCTEAGM 528
++ +E EV R + +L + D + + + +
Sbjct: 93 SKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEFIVAFDEAQYLRFYGSRGGKELL 152
Query: 529 YALRERRVHVTQEDFEMAVAKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDIL 588
+ + ++V + + + I D GRI ++ P +++ ++ L
Sbjct: 153 ALFAYAYDSLPNLKIILTGSEVGLLHDFLKITDYESPLYGRIAGEVLVKPFDKDTSVEFL 212
Query: 589 RIHSRKMNL 597
+ R++NL
Sbjct: 213 KRGFREVNL 221
>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 = 32.6 bits (75), Expect = 0.44
Identities = 12/19 (63%), Positives = 15/19 (78%)
Query: 416 VLLYGPPGTGKTLLARAVA 434
+LL GP G+GKTLLA +A
Sbjct: 54 ILLIGPTGSGKTLLAETLA 72
>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 = 32.6 bits (75), Expect = 0.45
Identities = 11/19 (57%), Positives = 16/19 (84%)
Query: 416 VLLYGPPGTGKTLLARAVA 434
+LL GP G+GKTL+A+ +A
Sbjct: 75 ILLIGPTGSGKTLMAQTLA 93
>3trt_A Vimentin; cytoskeleton, intermediate filament, alpha-helix,
structural protein; 2.30A {Homo sapiens} PDB: 3klt_A*
Length = 77
Score = 29.5 bits (67), Expect = 0.56
Identities = 9/42 (21%), Positives = 18/42 (42%)
Query: 130 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ 171
+Y +K +L LR+ + + E +V+ L E+
Sbjct: 32 WYKSKFADLSEAANRNNDALRQAKQESTEYRRQVQSLTMEVD 73
Score = 29.5 bits (67), Expect = 0.56
Identities = 9/42 (21%), Positives = 18/42 (42%)
Query: 253 YYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ 294
+Y +K +L LR+ + + E +V+ L E+
Sbjct: 32 WYKSKFADLSEAANRNNDALRQAKQESTEYRRQVQSLTMEVD 73
>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 = 32.0 bits (73), Expect = 0.60
Identities = 20/80 (25%), Positives = 33/80 (41%), Gaps = 18/80 (22%)
Query: 416 VLLYGPPGTGKTLLARAVAH-----HTECTFIRVSGSELVQKFIGEGSRMVRE---LFVM 467
+++ G PG GKT +AH + ++ S+ + I +VR F
Sbjct: 45 MIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASD--DRGID----VVRNQIKHFAQ 98
Query: 468 AREHAPS----IIFMDEIDS 483
+ H P I+ +DE DS
Sbjct: 99 KKLHLPPGKHKIVILDEADS 118
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 32.5 bits (74), Expect = 0.64
Identities = 14/62 (22%), Positives = 31/62 (50%), Gaps = 7/62 (11%)
Query: 399 VKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIRV------SGSELVQK 452
+KH ++F L + +G++L GPPG+GKT++ ++ + + +E +
Sbjct: 1254 IKHEKIFYDL-LNSKRGIILCGPPGSGKTMIMNNALRNSSLYDVVGINFSKDTTTEHILS 1312
Query: 453 FI 454
+
Sbjct: 1313 AL 1314
Score = 31.3 bits (71), Expect = 1.3
Identities = 12/36 (33%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 410 IAQPKG-VLLYGPPGTGKTLLARAVAHHTECTFIRV 444
+ Q +G ++L G TGKT+L R VA ++
Sbjct: 1605 LKQVQGHMMLIGASRTGKTILTRFVAWLNGLKIVQP 1640
>1fxk_C Protein (prefoldin); archaeal protein, chaperone; 2.30A
{Methanothermobacter thermautotrophicusorganism_taxid}
SCOP: a.2.5.1
Length = 133
Score = 30.7 bits (69), Expect = 0.69
Identities = 22/175 (12%), Positives = 58/175 (33%), Gaps = 53/175 (30%)
Query: 137 ELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLV-- 194
L IVA+ +++ + ++ A VR EL++L++ ++ D + LV
Sbjct: 2 ALAEIVAQLNIYQSQVELIQQQMEA-VRATISELEILEK----TLSDIQGKDGSETLVPV 56
Query: 195 --------KVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKS 246
++ + ++ + + I K + ++A++
Sbjct: 57 GAGSFIKAELKDTSEVIMSVGAGVAI------------------------KKNFEDAME- 91
Query: 247 SEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGS 301
++ EL E L+++ + + L + + L +
Sbjct: 92 ------SIKSQKNEL-------ESTLQKMGENLRAITDIMMKLSPQAEELLAAVA 133
>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 = 31.4 bits (71), Expect = 0.70
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 416 VLLYGPPGTGKTLLARAVAH 435
+ L+GP TGKT +A A+AH
Sbjct: 107 IWLFGPATTGKTNIAEAIAH 126
>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding
mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli}
SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*
Length = 758
Score = 32.2 bits (74), Expect = 0.71
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 413 PKGVLLY-GPPGTGKTLLARAVAHHTECTFIRVSGSELVQKF 453
P G L+ GP G GKT + ++ +R SE +++
Sbjct: 487 PVGSFLFAGPTGVGKTEVTVQLSKALGIELLRFDMSEYMERH 528
>3nr7_A DNA-binding protein H-NS; dimer, oligomerisation, DNA condensation;
3.70A {Salmonella enterica subsp} PDB: 1lr1_A 1ni8_A
Length = 86
Score = 29.5 bits (66), Expect = 0.74
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 135 IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKK 191
+E+L+++V E+ + A+ E K++ RE +L G E++ M K
Sbjct: 33 LEKLEVVVNERREEESAAAAEVEERTRKLQQYRE---MLIADGIDPNELLNSMAAAK 86
Score = 29.5 bits (66), Expect = 0.74
Identities = 14/57 (24%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 258 IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKK 314
+E+L+++V E+ + A+ E K++ RE +L G E++ M K
Sbjct: 33 LEKLEVVVNERREEESAAAAEVEERTRKLQQYRE---MLIADGIDPNELLNSMAAAK 86
>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP:
a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A*
Length = 549
Score = 31.9 bits (72), Expect = 0.84
Identities = 25/175 (14%), Positives = 54/175 (30%), Gaps = 32/175 (18%)
Query: 262 QLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMDKKKVLVKVHP 321
+ I E L + R E A L++ + Q S +G ++ + + H
Sbjct: 33 KNIFTEDHSELISKMSTRLERIANF------LRIYRRQASELGPLIDFFNYNN---QSHL 83
Query: 322 EGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMVEKVPDSTYEMV 381
ID I+ D+ +A + L + L P +
Sbjct: 84 ADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIR---------- 133
Query: 382 GGLDNQIKEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 436
+ + + + ++ + + L+G G+GK+++A
Sbjct: 134 ---EYHVDRVIKKLD----------EMCDLDSFFLFLHGRAGSGKSVIASQALSK 175
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 31.8 bits (72), Expect = 0.88
Identities = 34/220 (15%), Positives = 69/220 (31%), Gaps = 23/220 (10%)
Query: 272 LRRLQAQRNELNAKVRMLREELQLLQEQGSYVGEVVKPMD--KKKVLVKVHPEGKFVVDI 329
L ++ ++ M+ + G +V+ + + +++ P
Sbjct: 235 LSTFESNELKVAIGDEMILWYSGMQHPDWEGRGYIVRLPNSFQDTFTLELKPSKTPPPTH 294
Query: 330 DKNIDINDVTPNCRVALRNESYTLHKILPNKVDPLVSLMMV---EKVPDSTYEMVGGLDN 386
+ + L K +K L +V D ++ D
Sbjct: 295 LTTGFTAEFIWK-GTSYDRMQDALKKFAIDKKSISGYLYYKILGHQVVDISF------DV 347
Query: 387 QIKEIKEVIELPVKHPELFDA-LGIAQPKGVLLYGPPGTGKTLLARAVAHHTECTFIR-- 443
+ + + + +A + Q L+ GPPGTGKT+ + + +H
Sbjct: 348 PLPKEFSIPNFAQLNSSQSNAVSHVLQRPLSLIQGPPGTGKTVTSATIVYHLSKIHKDRI 407
Query: 444 -------VSGSELVQKFIGEGSRMVRELFVMAREHAPSII 476
V+ L K G ++VR L +RE S +
Sbjct: 408 LVCAPSNVAVDHLAAKLRDLGLKVVR-LTAKSREDVESSV 446
>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase;
NMR {Homo sapiens} SCOP: c.37.1.11
Length = 189
Score = 30.8 bits (69), Expect = 0.89
Identities = 27/145 (18%), Positives = 51/145 (35%), Gaps = 9/145 (6%)
Query: 414 KGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAREHAP 473
+ V L GPPG GKT L + + + + V G ++ G R+ ++ ++ P
Sbjct: 2 RHVFLTGPPGVGKTTLIHKASEVLKSSGVPVDGF-YTEEVRQGGRRIGFDVVTLSGTRGP 60
Query: 474 -SIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALR 532
S + ++ R+ + ++ L +L D V E G
Sbjct: 61 LSRVGLEPPPGKRECRVGQYVVDLTSFEQLALPVLRNADCSSGPGQRVCVIDEIGKME-- 118
Query: 533 ERRVHVTQEDFEMAVAKVIMATNRI 557
+ + F AV + + I
Sbjct: 119 -----LFSQLFIQAVRQTLSTPGTI 138
>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 = 31.3 bits (71), Expect = 0.96
Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 16/85 (18%)
Query: 416 VLLYGPPGTGKTLLARAVAH------HTECTFIRVSGS-----ELVQKFIGEGSRMVREL 464
+L YGPPGTGKT A+ + + ++ S +V++ + +R+
Sbjct: 61 MLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKVKNFARLTVSK 120
Query: 465 FVMAREHAPS-----IIFMDEIDSI 484
II +DE DS+
Sbjct: 121 PSKHDLENYPCPPYKIIILDEADSM 145
>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop,
transferase; HET: ADP; 2.33A {Enterobacteria phage T4}
SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A*
2ia5_A
Length = 301
Score = 31.2 bits (70), Expect = 0.97
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 413 PKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSR 459
K +L G PG+GK+ AR F ++ + Q + R
Sbjct: 2 KKIILTIGCPGSGKSTWAREFIAKNP-GFYNINRDDYRQSIMAHEER 47
>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 = 31.4 bits (71), Expect = 0.98
Identities = 13/48 (27%), Positives = 18/48 (37%), Gaps = 8/48 (16%)
Query: 389 KEIKEVIELPVKHPELFDALGIAQPKGVLLYGPPGTGKTLLARAVAHH 436
+E+ ++ P L LLYGP GTGK A+
Sbjct: 20 EELTNFLKSLSDQPRDLPHL--------LLYGPNGTGKKTRCMALLES 59
>2ve7_A Kinetochore protein HEC1, kinetochore protein SPC; mitosis,
centromere, cell cycle, microtubule, C division,
calponin homology; 2.88A {Homo sapiens} PDB: 3iz0_C*
Length = 315
Score = 31.3 bits (70), Expect = 1.0
Identities = 29/227 (12%), Positives = 67/227 (29%), Gaps = 28/227 (12%)
Query: 77 ILTAFHKIIRKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAI-----KSSEGFKPYY 131
I+ A +I + D + + E E ++ K E F
Sbjct: 103 IVAALVWLIDCIKIHTAMKESSPLFDDGQPWGEETEDGIMHNKLFLDYTIKCYESFMSGA 162
Query: 132 VTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQGS----YVGEVVKPM 187
+ E + ++ + + L AK R L E++ L+++ S E +K +
Sbjct: 163 DSFDEMNAELQSKLKDLFNVDAFKLESLEAKNRALNEQIARLEQERSTANKANAERLKRL 222
Query: 188 DKKKVLVKVHPEGKFVVDIDKNIDINDVTPNCRVALRNESYTLHKILPNKMDVDEAIKSS 247
K L K + + + + + ++LH +V
Sbjct: 223 QKSADLYKDRLGLEIRKIYGEKLQFIFTNIDPKNPESPFMFSLHLNEARDYEV------- 275
Query: 248 EGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQ 294
+ + + ++ + N +A + +R+
Sbjct: 276 -----------SDSAPHLEGLAEFQENVR-KTNNFSAFLANVRKAFT 310
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 30.9 bits (69), Expect = 1.0
Identities = 15/77 (19%), Positives = 26/77 (33%), Gaps = 24/77 (31%)
Query: 46 VPLKRKMPG--------QNKNETVVT-----TITFHNVTIPNREILTAFHKIIRKENKEK 92
PL R + G + K V+ I +P EIL
Sbjct: 142 PPLIRIVSGLELSDTKQKGKKFLVIAYEPFENIAI---ELPPNEIL--------FSENND 190
Query: 93 LQNANEGEMDVDEAYTY 109
+ N N+G ++++ T+
Sbjct: 191 MDNNNDGVDELNKKCTF 207
>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding
protein, ring protein, octamer, AAA ATPase; 3.20A {Homo
sapiens} SCOP: c.37.1.11 PDB: 2zjb_A
Length = 343
Score = 31.4 bits (71), Expect = 1.1
Identities = 34/173 (19%), Positives = 60/173 (34%), Gaps = 41/173 (23%)
Query: 392 KEVIELPVKHPELFDALGIAQPKGVL--LYGPPGTGKTLLA------------------R 431
K V + E LG + +G TGKT L+ +
Sbjct: 99 KMVFHITTGSQEFDKLLGGGIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGK 158
Query: 432 AVAHHTECTFIRVSGSELVQKFIGEGSRMVRELFVMAR----EHAPSIIFMDE------- 480
+ TE TF ++ +F + ++ + AR EH ++
Sbjct: 159 IIFIDTENTFRPDRLRDIADRFNVDHDAVLDNVLY-ARAYTSEHQMELLDYVAAKFHEEA 217
Query: 481 -------IDSIGSS-RIE-SGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCT 524
IDSI + R++ SG G +E Q+ + ++L++L N+ T
Sbjct: 218 GIFKLLIIDSIMALFRVDFSGRGELAERQQKLAQMLSRLQKISEEYNVAVFVT 270
>2cwd_A Low molecular weight phosphotyrosine protein PHOS; tyrosine
phosphatase, structural genomics; 1.90A {Thermus
thermophilus}
Length = 161
Score = 30.2 bits (69), Expect = 1.1
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 140 LIVAEKEQNLRRLQAQRNELNAKVRMLREEL 170
I+ +NL + + E KVR++ EEL
Sbjct: 86 HILVMDRENLEEVLRRFPEARGKVRLVLEEL 116
Score = 30.2 bits (69), Expect = 1.1
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 263 LIVAEKEQNLRRLQAQRNELNAKVRMLREEL 293
I+ +NL + + E KVR++ EEL
Sbjct: 86 HILVMDRENLEEVLRRFPEARGKVRLVLEEL 116
>2zpa_A Uncharacterized protein YPFI; RNA modification enzyme, RNA
helicase, acetyltransferase, GCN5 acetyltransferase;
HET: ACO ADP; 2.35A {Escherichia coli K12}
Length = 671
Score = 31.2 bits (70), Expect = 1.2
Identities = 19/115 (16%), Positives = 40/115 (34%), Gaps = 14/115 (12%)
Query: 385 DNQIKEIKEVIELPVKHP----------ELFDALGIAQPKGVLLYGPPGTGKTLLAR-AV 433
NQ + +P +L L P + G GK+ LA +
Sbjct: 154 QNQPFSLAHFTPRTDWYPATGAPQPEQQQLLKQLMTMPPGVAAVTAARGRGKSALAGQLI 213
Query: 434 AHHTECTFI---RVSGSELVQKFIGEGSRMVRELFVMAREHAPSIIFMDEIDSIG 485
+ + + ++++ +F GE R + ++A + + +DE +I
Sbjct: 214 SRIAGRAIVTAPAKASTDVLAQFAGEKFRFIAPDALLASDEQADWLVVDEAAAIP 268
>1ny5_A Transcriptional regulator (NTRC family); AAA+ ATPase, sigma54
activator, bacterial transcription, DIM transcription;
HET: ADP; 2.40A {Aquifex aeolicus} SCOP: c.23.1.1
c.37.1.20 PDB: 1ny6_A* 3m0e_A* 1zy2_A*
Length = 387
Score = 30.9 bits (71), Expect = 1.2
Identities = 17/67 (25%), Positives = 27/67 (40%), Gaps = 15/67 (22%)
Query: 371 EKVPDSTYEMVGGLDNQIKEIKEVIELPVKHPELFDALGIAQPKG-VLLYGPPGTGKTLL 429
+ E V ++KEI E I+ I+ + VL+ G G GK ++
Sbjct: 130 REKDLKEEEYVFE-SPKMKEILEKIKK------------ISCAECPVLITGESGVGKEVV 176
Query: 430 ARAVAHH 436
AR + H
Sbjct: 177 ARLI-HK 182
>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous
recombination, breast cancer susceptibility, RECA-like
ATPase, protein complex; HET: DNA MSE; 1.70A {Homo
sapiens} SCOP: c.37.1.11
Length = 243
Score = 30.6 bits (69), Expect = 1.4
Identities = 30/170 (17%), Positives = 57/170 (33%), Gaps = 39/170 (22%)
Query: 393 EVIELPVKHPELFDALGIAQPKGVL--LYGPPGTGKTLLA------------------RA 432
E+I++ EL L G + ++G TGKT + +A
Sbjct: 2 EIIQITTGSKELDKLLQGGIETGSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKA 61
Query: 433 VAHHTECTF-----------IRVSGSELVQKFI-------GEGSRMVRELFVMAREHAPS 474
+ TE TF +SGS+++ ++++ + M E +
Sbjct: 62 MYIDTEGTFRPERLLAVAERYGLSGSDVLDNVAYARAFNTDHQTQLLYQASAMMVESRYA 121
Query: 475 IIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCT 524
++ +D ++ + G G S Q + L L + V T
Sbjct: 122 LLIVDSATALYRTDYS-GRGELSARQMHLARFLRMLLRLADEFGVAVVIT 170
>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 = 30.6 bits (69), Expect = 1.6
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRV 444
++L G PG GK+ ++ +A I V
Sbjct: 7 IILTGLPGVGKSTFSKNLAKILSKNNIDV 35
>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA
damage, DNA recombinat repair, nucleotide-binding; HET:
DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*
Length = 400
Score = 30.5 bits (68), Expect = 1.7
Identities = 34/171 (19%), Positives = 53/171 (30%), Gaps = 39/171 (22%)
Query: 392 KEVIELPVKHPELFDALGIAQPKGVL--LYGPPGTGKTLLARAVA--------------- 434
E+I L L LG G + L+G TGK+ L +A
Sbjct: 155 SELICLTTGSKNLDTLLGGGVETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGK 214
Query: 435 ---HHTECTFIRVSGSELVQKF------------------IGEGSRMVRELFVMAREHAP 473
TE TF V + Q+F R++ M E
Sbjct: 215 CLYIDTEGTFRPVRLVSIAQRFGLDPDDALNNVAYARAYNADHQLRLLDAAAQMMSESRF 274
Query: 474 SIIFMDEIDSIGSSRIESGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCT 524
S+I +D + ++ + G G S Q + + + L + V T
Sbjct: 275 SLIVVDSVMALYRTDFS-GRGELSARQMHLAKFMRALQRLADQFGVAVVVT 324
>1gd2_E Transcription factor PAP1; basic leucine zipper, protein-DNA
complex, transcription/DNA complex; HET: DNA; 2.00A
{Schizosaccharomyces pombe} SCOP: h.1.3.1
Length = 70
Score = 28.1 bits (62), Expect = 1.8
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 133 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQ 174
++ L+ V ++ + ++L KVR L EEL++L+
Sbjct: 29 DHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRILK 70
Score = 28.1 bits (62), Expect = 1.8
Identities = 11/42 (26%), Positives = 22/42 (52%)
Query: 256 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQ 297
++ L+ V ++ + ++L KVR L EEL++L+
Sbjct: 29 DHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRILK 70
>4etn_A LMPTP, low molecular weight protein-tyrosine-phosphatase;
dephosphorylation, hydrolase; 1.10A {Bacillus subtilis}
PDB: 4eti_A 1zgg_A
Length = 184
Score = 29.9 bits (68), Expect = 1.8
Identities = 8/29 (27%), Positives = 15/29 (51%)
Query: 140 LIVAEKEQNLRRLQAQRNELNAKVRMLRE 168
L++A Q+ + + +Q KV L+E
Sbjct: 113 LVLAMTHQHKQIIASQFGRYRDKVFTLKE 141
Score = 29.9 bits (68), Expect = 1.8
Identities = 8/29 (27%), Positives = 15/29 (51%)
Query: 263 LIVAEKEQNLRRLQAQRNELNAKVRMLRE 291
L++A Q+ + + +Q KV L+E
Sbjct: 113 LVLAMTHQHKQIIASQFGRYRDKVFTLKE 141
>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 = 29.9 bits (67), Expect = 1.9
Identities = 9/48 (18%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSRMVRE 463
++ GP G GK+ + +A + + +++ + G R E
Sbjct: 5 YIITGPAGVGKSTTCKRLAAQLDNSAY--IEGDIINHMVVGGYRPPWE 50
>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A
{Enterobacteria phage T4} SCOP: c.37.1.1
Length = 181
Score = 29.7 bits (67), Expect = 1.9
Identities = 12/47 (25%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 413 PKGVLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGEGSR 459
K +L G PG+GK+ AR F ++ + Q + R
Sbjct: 2 KKIILTIGCPGSGKSTWAREFIAKNP-GFYNINRDDYRQSIMAHEER 47
>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 = 2.0
Identities = 7/27 (25%), Positives = 12/27 (44%)
Query: 409 GIAQPKGVLLYGPPGTGKTLLARAVAH 435
G + ++ GP TGK+ + H
Sbjct: 54 GTPKKNCLVFCGPANTGKSYFGMSFIH 80
>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI,
protein structure initiative; 2.05A {Escherichia coli}
SCOP: c.37.1.2
Length = 173
Score = 29.4 bits (67), Expect = 2.2
Identities = 10/33 (30%), Positives = 17/33 (51%)
Query: 410 IAQPKGVLLYGPPGTGKTLLARAVAHHTECTFI 442
+A+ + + L GP G GK+ + R +A F
Sbjct: 1 MAEKRNIFLVGPMGAGKSTIGRQLAQQLNMEFY 33
>1ojl_A Transcriptional regulatory protein ZRAR; response regulator, two
component system, AAA domain, NTRC family, DNA-binding;
HET: ATP; 3.0A {Salmonella typhimurium}
Length = 304
Score = 30.1 bits (69), Expect = 2.2
Identities = 12/21 (57%), Positives = 16/21 (76%), Gaps = 1/21 (4%)
Query: 416 VLLYGPPGTGKTLLARAVAHH 436
VL++G GTGK L+ARA+ H
Sbjct: 28 VLIHGDSGTGKELVARAL-HA 47
>2cly_B ATP synthase D chain, mitochondrial; mitochondrion, ION transport,
CF(0), stator, transport, acetylation, hydrogen ION
transport; 2.8A {Bos taurus} SCOP: f.53.1.1 PDB: 2wss_U*
Length = 160
Score = 29.5 bits (66), Expect = 2.3
Identities = 19/104 (18%), Positives = 41/104 (39%), Gaps = 15/104 (14%)
Query: 232 KILPNKMDVDEAIKSSEGFK-PYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLR 290
+ VD+ K K P K + AE++++++ + +++
Sbjct: 58 ANVAKAGLVDDFEKKFNALKVPIPEDK--YTAQVDAEEKEDVKSCAEFLTQSKTRIQEYE 115
Query: 291 EELQLLQEQGSYVGEVVKPMDKKKV--LVKVHPEGKFVVDIDKN 332
+EL+ ++ + P D+ + L +V PE K +D K
Sbjct: 116 KELEKMRN--------IIPFDQMTIEDLNEVFPETK--LDKKKY 149
>3bgy_A Polynucleotide 5'-triphosphatase; RNA capping, tunnel
triphsophatase, metalloenzyme, beta barrel, hydrolase,
mRNA capping; 1.65A {Acanthamoeba polyphaga mimivirus}
PDB: 2qy2_A* 2qze_A
Length = 237
Score = 29.8 bits (66), Expect = 2.3
Identities = 38/195 (19%), Positives = 76/195 (38%), Gaps = 14/195 (7%)
Query: 57 KNETVVTTITFHNVTIPNREILTAFHKIIRKENKEKLQNANEGEMDVDEAYTYEV--ERQ 114
+ + ++F N+ PN +T + I ENK + N + + + Y V Q
Sbjct: 32 NGDNLEFEVSFKNINYPNFMRITEHYINITPENKIESNNYLDISLIFPDKNVYRVSLFNQ 91
Query: 115 RTVDEAI-----KSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREE 169
+ E I SS Y V+ + + K + +L + ++ EE
Sbjct: 92 EQIGEFITKFSKASSNDISRYIVSLDPSDDIEIVYKNRGSGKLIGI-DNWAITIK-STEE 149
Query: 170 LQLLQEQGSYVGEVVKPMDKKKVLVKVHPEGKFVVDIDKNIDINDV--TPNC-RVALRNE 226
+ L+ + K ++++ + F ++ + IDI DV +P ++
Sbjct: 150 IPLVAGKSKIS--KPKITGSERIMYRYKTRYSFTINKNSRIDITDVKSSPIIWKLMTVPS 207
Query: 227 SYTLHKILPNKMDVD 241
+Y L L NK+D++
Sbjct: 208 NYELELELINKIDIN 222
>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 = 2.5
Identities = 8/27 (29%), Positives = 14/27 (51%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFI 442
+L G PG+GK+ + R +A +
Sbjct: 5 AVLVGLPGSGKSTIGRRLAKALGVGLL 31
>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2
function project, S2F, unknown function; HET: ADP; 1.70A
{Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A
Length = 158
Score = 29.1 bits (66), Expect = 2.7
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 416 VLLYGPPGTGKTLLARAVAH 435
V L G G GKT L R +
Sbjct: 36 VYLNGDLGAGKTTLTRGMLQ 55
>3dzd_A Transcriptional regulator (NTRC family); sigma43 activator, AAA+
ATPase, response regulator, transcriptional activator,
ATP-binding; HET: ADP; 2.40A {Aquifex aeolicus} PDB:
1zit_A 2jrl_A
Length = 368
Score = 29.7 bits (68), Expect = 2.9
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 416 VLLYGPPGTGKTLLARAVAHH 436
VL+ G GTGK ++AR + +
Sbjct: 155 VLITGESGTGKEIVARLIHRY 175
>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 = 29.1 bits (66), Expect = 3.1
Identities = 7/30 (23%), Positives = 13/30 (43%)
Query: 413 PKGVLLYGPPGTGKTLLARAVAHHTECTFI 442
+ + + G G G T + R +A F+
Sbjct: 2 TEPIFMVGARGCGMTTVGRELARALGYEFV 31
>1lwu_C Fibrinogen gamma chain; heterotrimer, protein-peptide complex,
blood clotting; HET: NDG MAN NAG BMA GAL; 2.80A
{Petromyzon marinus} SCOP: d.171.1.1 h.1.8.1 PDB:
1n73_C*
Length = 323
Score = 29.4 bits (66), Expect = 3.4
Identities = 10/53 (18%), Positives = 23/53 (43%)
Query: 112 ERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQNLRRLQAQRNELNAKVR 164
+ + + E ++ E + +I+EL + +Q + RLQ Q ++
Sbjct: 5 KTVQKILEEVRILEQIGVSHDAQIQELSEMWRVNQQFVTRLQQQLVDIRQTCS 57
Score = 29.0 bits (65), Expect = 5.5
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 256 TKIEELQLIVAEKEQNLRRLQAQRNELNAKVR 287
+I+EL + +Q + RLQ Q ++
Sbjct: 26 AQIQELSEMWRVNQQFVTRLQQQLVDIRQTCS 57
>2bjv_A PSP operon transcriptional activator; AAA, transcription
activation, gene regulation, sigma54 activator, enhancer
binding protein, PSPF; 1.7A {Escherichia coli} PDB:
2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*
Length = 265
Score = 29.4 bits (67), Expect = 3.5
Identities = 10/21 (47%), Positives = 14/21 (66%), Gaps = 1/21 (4%)
Query: 416 VLLYGPPGTGKTLLARAVAHH 436
VL+ G GTGK L+A + H+
Sbjct: 32 VLIIGERGTGKELIASRL-HY 51
>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric
ring, heptamer, ring, oligomer, RAD51 polymerizat motif;
HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1
c.37.1.11
Length = 349
Score = 29.6 bits (66), Expect = 3.6
Identities = 12/48 (25%), Positives = 20/48 (41%), Gaps = 2/48 (4%)
Query: 389 KEIKEVIELPVKHPELFDALGIAQPKGVL--LYGPPGTGKTLLARAVA 434
K+ + + L LG + ++G G+GKT LA +A
Sbjct: 105 KKRATIGRISTGSKSLDKLLGGGIETQAITEVFGEFGSGKTQLAHTLA 152
>2r2a_A Uncharacterized protein; zonular occludens toxin, structural
genomics, APC84050.2, PS protein structure initiative;
HET: MSE; 1.82A {Neisseria meningitidis MC58}
Length = 199
Score = 28.9 bits (64), Expect = 3.7
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 417 LLYGPPGTGKTLLA 430
L+ G PG+GKTL
Sbjct: 9 LITGTPGSGKTLKM 22
>1rsg_A FMS1 protein; FAD binding motif, oxidoreductase; HET: FAD; 1.90A
{Saccharomyces cerevisiae} PDB: 1z6l_A* 3bi2_A* 3bi4_A*
3bi5_A* 3bnm_B* 3bnu_B* 3cn8_B* 3cnd_B* 3cnp_B* 3cns_A*
3cnt_B* 1yy5_A* 1xpq_A*
Length = 516
Score = 29.8 bits (66), Expect = 3.8
Identities = 16/88 (18%), Positives = 33/88 (37%)
Query: 492 GSGGDSEVQRTMLELLNQLDGFEATKNIKGVCTEAGMYALRERRVHVTQEDFEMAVAKVI 551
G G + ++ ++ +K C + + V V ED + A +
Sbjct: 190 GHQGRNAFALNYDSVVQRIAQSFPQNWLKLSCEVKSITREPSKNVTVNCEDGTVYNADYV 249
Query: 552 MATNRIDILDPALLRPGRIDRKIEFPPP 579
+ T +L+ ++ + +IEF PP
Sbjct: 250 IITVPQSVLNLSVQPEKNLRGRIEFQPP 277
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 29.5 bits (67), Expect = 4.0
Identities = 17/37 (45%), Positives = 22/37 (59%), Gaps = 3/37 (8%)
Query: 420 GPPGTGKTLLARAVAHH---TECTFIRVSGSELVQKF 453
GP G GKT LARA+A E + IR+ SE ++K
Sbjct: 528 GPTGVGKTELARALAESIFGDEESMIRIDMSEYMEKH 564
>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM:
PF02562, ST genomics, PSI-2, protein structure
initiative; 2.35A {Corynebacterium glutamicum atcc
13032}
Length = 208
Score = 29.1 bits (66), Expect = 4.1
Identities = 10/15 (66%), Positives = 11/15 (73%)
Query: 420 GPPGTGKTLLARAVA 434
GP G+GKT LA A A
Sbjct: 29 GPAGSGKTYLAMAKA 43
>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA
complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F
2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A
Length = 62
Score = 26.6 bits (59), Expect = 4.5
Identities = 11/31 (35%), Positives = 22/31 (70%)
Query: 146 EQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
E+ ++ L+AQ +EL + MLRE++ L+++
Sbjct: 28 EEKVKTLKAQNSELASTANMLREQVAQLKQK 58
Score = 26.6 bits (59), Expect = 4.5
Identities = 11/31 (35%), Positives = 22/31 (70%)
Query: 269 EQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
E+ ++ L+AQ +EL + MLRE++ L+++
Sbjct: 28 EEKVKTLKAQNSELASTANMLREQVAQLKQK 58
>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 = 28.5 bits (63), Expect = 4.6
Identities = 13/37 (35%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQK 452
+L+ G PGTGKT +A +A + F + +LV++
Sbjct: 13 ILITGTPGTGKTSMAEMIAAELDG-FQHLEVGKLVKE 48
>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus
thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*
Length = 311
Score = 28.7 bits (65), Expect = 5.5
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 420 GPPGTGKTLLARAVAHH---TECTFIRVSGSELVQKF 453
GP G GKT LA+ +A TE IR+ +E ++K
Sbjct: 54 GPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKH 90
>3rof_A Low molecular weight protein-tyrosine-phosphatase; phosphatase,
hydrolase; 1.03A {Staphylococcus aureus}
Length = 158
Score = 28.2 bits (64), Expect = 5.7
Identities = 7/37 (18%), Positives = 16/37 (43%)
Query: 132 VTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLRE 168
++ IVA + N+ +++ L ++ L E
Sbjct: 78 FEATDDFDYIVAMDQSNVDNIKSINPNLKGQLFKLLE 114
Score = 28.2 bits (64), Expect = 5.7
Identities = 7/37 (18%), Positives = 16/37 (43%)
Query: 255 VTKIEELQLIVAEKEQNLRRLQAQRNELNAKVRMLRE 291
++ IVA + N+ +++ L ++ L E
Sbjct: 78 FEATDDFDYIVAMDQSNVDNIKSINPNLKGQLFKLLE 114
>1yhn_B RILP, RAB interacting lysosomal protein; protein transport; HET:
GTP; 3.00A {Homo sapiens} SCOP: h.1.34.1
Length = 65
Score = 26.6 bits (58), Expect = 5.7
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 147 QNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
+ ++ +RNEL AKV +L+EEL Q +
Sbjct: 3 EEFEQILQERNELKAKVFLLKEELAYFQRE 32
Score = 26.6 bits (58), Expect = 5.7
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 270 QNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
+ ++ +RNEL AKV +L+EEL Q +
Sbjct: 3 EEFEQILQERNELKAKVFLLKEELAYFQRE 32
>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 = 28.3 bits (64), Expect = 6.1
Identities = 20/118 (16%), Positives = 37/118 (31%), Gaps = 25/118 (21%)
Query: 416 VLLYGPPGTGKT--LLARAVAHHTECTFIRVSGSELVQKF------IGEGSRMVRELFVM 467
+YGP +GKT L + + ++ G ++ G F++
Sbjct: 23 TQVYGPYASGKTTLALQTGLLSGKKVAYVDTEGGFSPERLVQMAETRGLNPEEALSRFIL 82
Query: 468 AREHAPSIIF--------MDE-------IDSIGS--SRIESGSGGDSEVQRTMLELLN 508
+ +DSI + E+ SG +E+ R + LL
Sbjct: 83 FTPSDFKEQRRVIGSLKKTVDSNFALVVVDSITAHYRAEENRSGLIAELSRQLQVLLW 140
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain,
PIN-tower interface, coupling hydrolysis to DNA
unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Length = 459
Score = 28.8 bits (64), Expect = 6.3
Identities = 8/31 (25%), Positives = 13/31 (41%)
Query: 403 ELFDALGIAQPKGVLLYGPPGTGKTLLARAV 433
+ + V + GP GTG T L + +
Sbjct: 35 NIVMKAIKEKKHHVTINGPAGTGATTLTKFI 65
>2wja_A Putative acid phosphatase WZB; hydrolase; 2.50A {Escherichia coli}
Length = 168
Score = 27.9 bits (63), Expect = 6.6
Identities = 5/31 (16%), Positives = 12/31 (38%)
Query: 140 LIVAEKEQNLRRLQAQRNELNAKVRMLREEL 170
L++ + +L ++ E K + L
Sbjct: 102 LLLVMEYSHLEQISRIAPEARGKTMLFGHWL 132
Score = 27.9 bits (63), Expect = 6.6
Identities = 5/31 (16%), Positives = 12/31 (38%)
Query: 263 LIVAEKEQNLRRLQAQRNELNAKVRMLREEL 293
L++ + +L ++ E K + L
Sbjct: 102 LLLVMEYSHLEQISRIAPEARGKTMLFGHWL 132
>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA
complex, transcription/DNA complex; 3.00A {Homo sapiens}
SCOP: h.1.3.1
Length = 61
Score = 26.2 bits (58), Expect = 6.7
Identities = 9/35 (25%), Positives = 18/35 (51%)
Query: 142 VAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
V E+ L + +L ++V +LR E+ L++
Sbjct: 24 VQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQL 58
Score = 26.2 bits (58), Expect = 6.7
Identities = 9/35 (25%), Positives = 18/35 (51%)
Query: 265 VAEKEQNLRRLQAQRNELNAKVRMLREELQLLQEQ 299
V E+ L + +L ++V +LR E+ L++
Sbjct: 24 VQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQL 58
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB:
1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 28.5 bits (63), Expect = 6.8
Identities = 8/26 (30%), Positives = 11/26 (42%)
Query: 413 PKGVLLYGPPGTGKTLLARAVAHHTE 438
V+ G G+GKT L + E
Sbjct: 14 SMIVVFVGTAGSGKTTLTGEFGRYLE 39
>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 = 28.7 bits (64), Expect = 7.0
Identities = 9/46 (19%), Positives = 20/46 (43%), Gaps = 5/46 (10%)
Query: 387 QIKEIKEVIELPVKHPELFDALGIAQPK-----GVLLYGPPGTGKT 427
+I ++ + + + G+ P+ +L+ G GTGK+
Sbjct: 22 RIVSGGKLKRMTREKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKS 67
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 28.0 bits (62), Expect = 7.1
Identities = 7/24 (29%), Positives = 11/24 (45%)
Query: 411 AQPKGVLLYGPPGTGKTLLARAVA 434
+ + + GP G GKT A +
Sbjct: 3 MRSPIIWINGPFGVGKTHTAHTLH 26
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP;
2.37A {Humulus lupulus}
Length = 339
Score = 28.4 bits (63), Expect = 7.5
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 411 AQPKGVLLYGPPGTGKTLLARAVAHH 436
+ K ++L G GTGK+ L+ +A H
Sbjct: 38 RKEKLLVLMGATGTGKSRLSIDLAAH 63
>2wmy_A WZB, putative acid phosphatase WZB; hydrolase; 2.21A {Escherichia
coli}
Length = 150
Score = 27.8 bits (63), Expect = 7.5
Identities = 5/31 (16%), Positives = 12/31 (38%)
Query: 140 LIVAEKEQNLRRLQAQRNELNAKVRMLREEL 170
L++ + +L ++ E K + L
Sbjct: 84 LLLVMEYSHLEQISRIAPEARGKTMLFGHWL 114
Score = 27.8 bits (63), Expect = 7.5
Identities = 5/31 (16%), Positives = 12/31 (38%)
Query: 263 LIVAEKEQNLRRLQAQRNELNAKVRMLREEL 293
L++ + +L ++ E K + L
Sbjct: 84 LLLVMEYSHLEQISRIAPEARGKTMLFGHWL 114
>2z43_A DNA repair and recombination protein RADA; archaea, filament, DNA
binding, molecular SWI RECA, DMC1; HET: DNA; 1.93A
{Sulfolobus solfataricus} PDB: 2bke_A* 2dfl_A* 2zub_A*
2zuc_A* 2zud_A*
Length = 324
Score = 28.5 bits (64), Expect = 7.7
Identities = 32/178 (17%), Positives = 56/178 (31%), Gaps = 46/178 (25%)
Query: 389 KEIKEVIELPVKHPELFDALGIAQPKGVL--LYGPPGTGKTLLA---------------- 430
KE V ++ L L + +G G+GKT L
Sbjct: 81 KERMNVKKISTGSQALDGLLAGGIETRTMTEFFGEFGSGKTQLCHQLSVNVQLPPEKGGL 140
Query: 431 --RAVAHHTECTF-----------IRVSGSELVQKFI-------GEGSRMVRELFVMARE 470
+AV TE TF + + ++ +V +L + +
Sbjct: 141 SGKAVYIDTEGTFRWERIENMAKALGLDIDNVMNNIYYIRAINTDHQIAIVDDLQELVSK 200
Query: 471 HAPS--IIFMDEIDSIGSS-RIE-SGSGGDSEVQRTMLELLNQLDGFEATKNIKGVCT 524
I+ +DS+ S R E G + Q+ + + L+QL +I + T
Sbjct: 201 DPSIKLIV----VDSVTSHFRAEYPGRENLAVRQQKLNKHLHQLTRLAEVYDIAVIIT 254
>2fek_A Low molecular weight protein-tyrosine- phosphatase WZB; phosphate
binding, hydrolase; NMR {Escherichia coli K12}
Length = 167
Score = 27.9 bits (63), Expect = 7.8
Identities = 7/29 (24%), Positives = 15/29 (51%)
Query: 140 LIVAEKEQNLRRLQAQRNELNAKVRMLRE 168
LI+ +++++ RL E+ KV +
Sbjct: 98 LILTMEKRHIERLCEMAPEMRGKVMLFGH 126
Score = 27.9 bits (63), Expect = 7.8
Identities = 7/29 (24%), Positives = 15/29 (51%)
Query: 263 LIVAEKEQNLRRLQAQRNELNAKVRMLRE 291
LI+ +++++ RL E+ KV +
Sbjct: 98 LILTMEKRHIERLCEMAPEMRGKVMLFGH 126
>2fxo_A Myosin heavy chain, cardiac muscle beta isoform; coiled coil
(dimeric, parallel), familial hypertrophic
cardiomyopathy, FHC-associated mutant E924K; 2.50A {Homo
sapiens} SCOP: h.1.26.1 PDB: 2fxm_A
Length = 129
Score = 27.5 bits (61), Expect = 7.9
Identities = 17/91 (18%), Positives = 40/91 (43%)
Query: 86 RKENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEK 145
RKE +EK+ + + + D+ E + +E K K++E+ + ++
Sbjct: 36 RKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEERCDQLIKNKIQLEAKVKEMNKRLEDE 95
Query: 146 EQNLRRLQAQRNELNAKVRMLREELQLLQEQ 176
E+ L A++ +L + L+ ++ L+
Sbjct: 96 EEMNAELTAKKRKLEDECSELKRDIDDLELT 126
Score = 27.5 bits (61), Expect = 8.1
Identities = 18/89 (20%), Positives = 43/89 (48%)
Query: 88 ENKEKLQNANEGEMDVDEAYTYEVERQRTVDEAIKSSEGFKPYYVTKIEELQLIVAEKEQ 147
E ++++ + E + EA R++ ++E + S K +++ Q +A+ E+
Sbjct: 10 EREKEMASMKEEFTRLKEALEKSEARRKELEEKMVSLLQEKNDLQLQVQAEQDNLADAEE 69
Query: 148 NLRRLQAQRNELNAKVRMLREELQLLQEQ 176
+L + +L AKV+ + + L+ +E
Sbjct: 70 RCDQLIKNKIQLEAKVKEMNKRLEDEEEM 98
>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A
{Coxiella burnetii}
Length = 185
Score = 27.5 bits (62), Expect = 9.2
Identities = 8/29 (27%), Positives = 12/29 (41%)
Query: 414 KGVLLYGPPGTGKTLLARAVAHHTECTFI 442
+ L G G GKT + +A T+
Sbjct: 6 TNIYLIGLMGAGKTSVGSQLAKLTKRILY 34
>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 = 9.3
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 420 GPPGTGKTLLARAVAHHTECTFIRV 444
G PG+GK+ L+ +A +
Sbjct: 29 GAPGSGKSTLSNPLAAALSAQGLPA 53
>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292;
mixed alpha-beta protein, rossman fold, signaling
protein, transferase; 1.40A {Aquifex aeolicus} SCOP:
c.37.1.11
Length = 178
Score = 27.7 bits (61), Expect = 9.4
Identities = 9/41 (21%), Positives = 16/41 (39%)
Query: 416 VLLYGPPGTGKTLLARAVAHHTECTFIRVSGSELVQKFIGE 456
+++ G PG GKT L + + I E+ +
Sbjct: 3 IIITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKK 43
>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 = 27.6 bits (60), Expect = 9.5
Identities = 6/27 (22%), Positives = 12/27 (44%), Gaps = 6/27 (22%)
Query: 386 NQIKEIKEVIEL--PVKHPELFDALGI 410
+K+++ ++L P AL I
Sbjct: 20 QALKKLQASLKLYADDSAP----ALAI 42
>2rjn_A Response regulator receiver:metal-dependent phosphohydrolase, HD
subdomain; structural genomics, oceanospirillum SP.
MED92; 2.10A {Neptuniibacter caesariensis}
Length = 154
Score = 27.2 bits (61), Expect = 9.8
Identities = 9/61 (14%), Positives = 23/61 (37%), Gaps = 6/61 (9%)
Query: 119 EAIKSSEGFKPYYVTK---IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQE 175
+A+ + + ++ K E++ +V EK L L+ + L + ++
Sbjct: 96 DAVNRGKISR--FLLKPWEDEDVFKVV-EKGLQLAFLREENLRLQEETEAKNKQEGHHHH 152
Query: 176 Q 176
Sbjct: 153 H 153
Score = 27.2 bits (61), Expect = 9.8
Identities = 9/61 (14%), Positives = 23/61 (37%), Gaps = 6/61 (9%)
Query: 242 EAIKSSEGFKPYYVTK---IEELQLIVAEKEQNLRRLQAQRNELNAKVRMLREELQLLQE 298
+A+ + + ++ K E++ +V EK L L+ + L + ++
Sbjct: 96 DAVNRGKISR--FLLKPWEDEDVFKVV-EKGLQLAFLREENLRLQEETEAKNKQEGHHHH 152
Query: 299 Q 299
Sbjct: 153 H 153
>2gi4_A Possible phosphotyrosine protein phosphatase; low molecular weight,
protein tyrosine phosphatase, bacterial phosphatase; NMR
{Campylobacter jejuni}
Length = 156
Score = 27.4 bits (62), Expect = 9.8
Identities = 3/29 (10%), Positives = 9/29 (31%)
Query: 140 LIVAEKEQNLRRLQAQRNELNAKVRMLRE 168
++ N + + KV + +
Sbjct: 84 FLITMDNSNFKNVLKNFTNTQNKVLKITD 112
Score = 27.4 bits (62), Expect = 9.8
Identities = 3/29 (10%), Positives = 9/29 (31%)
Query: 263 LIVAEKEQNLRRLQAQRNELNAKVRMLRE 291
++ N + + KV + +
Sbjct: 84 FLITMDNSNFKNVLKNFTNTQNKVLKITD 112
>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 = 28.0 bits (63), Expect = 9.9
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 418 LYGPPGTGKTLLARAVAHH 436
L+GP +G+T L A
Sbjct: 57 LWGPVKSGRTHLIHAACAR 75
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 0.134 0.369
Gapped
Lambda K H
0.267 0.0797 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 10,344,119
Number of extensions: 675882
Number of successful extensions: 2608
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2468
Number of HSP's successfully gapped: 376
Length of query: 665
Length of database: 6,701,793
Length adjustment: 100
Effective length of query: 565
Effective length of database: 3,909,693
Effective search space: 2208976545
Effective search space used: 2208976545
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: 60 (26.8 bits)