RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2406
(464 letters)
>1g41_A Heat shock protein HSLU; AAA-ATPase, CLPY, ATP-dependent
proteolysis, chaperone; HET: ADP; 2.30A {Haemophilus
influenzae} SCOP: c.37.1.20 PDB: 1g3i_A* 1im2_A* 1kyi_A*
1g4a_E* 1g4b_E 1yyf_A* 1do0_A* 1do2_A* 1e94_E* 1hqy_E*
1ht1_E* 1ht2_E*
Length = 444
Score = 542 bits (1398), Expect = 0.0
Identities = 225/387 (58%), Positives = 312/387 (80%), Gaps = 7/387 (1%)
Query: 82 VGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTREFEINKVR 141
VGKTEIARRLAKL+NAPFIK+EATKFTEVGYVG++VD+IIRDL D ++K R+ EI K R
Sbjct: 61 VGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAMKLVRQQEIAKNR 120
Query: 142 TRAEDAAEDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNKEIEIELN 201
RAED AE+R++D L+P + + + N +++ STRQ FRK+LREG LD+KEIEI+++
Sbjct: 121 ARAEDVAEERILDALLPPAKNQWGEVE--NHDSHSSTRQAFRKKLREGQLDDKEIEIDVS 178
Query: 202 DTGPHM-EIMSPPGMEEMTAQIKTMFSVIGNHRKKTRKIKIREAIKLLIDEEANKLLNED 260
EIM+PPGMEEMT Q++++F +G+ + K RK+KI++A+K LID+EA KL+N +
Sbjct: 179 AGVSMGVEIMAPPGMEEMTNQLQSLFQNLGSDKTKKRKMKIKDALKALIDDEAAKLINPE 238
Query: 261 EIQQKAINNVEQNGIIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGI 320
E++QKAI+ VEQNGI+F+DEIDKI + + + D+SR GVQRDLLPLVEG+TV+TK+G+
Sbjct: 239 ELKQKAIDAVEQNGIVFIDEIDKICKKG-EYSGADVSREGVQRDLLPLVEGSTVSTKHGM 297
Query: 321 IKTDHILFIASGAFHLAKPSDLIPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYE 380
+KTDHILFIASGAF +A+PSDLIPELQGR PIRVEL +LS +DF RI+T + LT+QY+
Sbjct: 298 VKTDHILFIASGAFQVARPSDLIPELQGRLPIRVELTALSAADFERILTEPHASLTEQYK 357
Query: 381 ALLATEGIKIEFVDDGIQRLAEIAYCINERTENIGARRLYTAMEKLLEEVSFNSNNIS-- 438
AL+ATEG+ I F D ++++AE A+ +NE+TENIGARRL+T ME+L++++SF++++++
Sbjct: 358 ALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGARRLHTVMERLMDKISFSASDMNGQ 417
Query: 439 -LLVDADYVNSRLGDLSINEDLSRYVL 464
+ +DA YV LG++ NEDLSR++L
Sbjct: 418 TVNIDAAYVADALGEVVENEDLSRFIL 444
>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 = 391 bits (1007), Expect = e-135
Identities = 130/291 (44%), Positives = 191/291 (65%), Gaps = 9/291 (3%)
Query: 177 STRQIFRKRLREGALDNKEIEIELNDTGPHMEIMSPPGMEEMTAQIKTMFSVIGNHRKKT 236
+ R R R L + E+ + ++ P G+ + +I + + N
Sbjct: 26 AVAIALRNRWRRMQLQE-PLRHEVTPKN--ILMIGPTGVGKT--EIARRLAKLANAPFIK 80
Query: 237 RKIKIREAIKLLIDEEANKLLNEDEIQQKAINNVEQNGIIFLDEIDKITTRSSQNNNTDI 296
+ + + E + + + + AI+ VEQNGI+F+DEIDKI + + + D+
Sbjct: 81 VEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIVFIDEIDKICKKG-EYSGADV 139
Query: 297 SRAGVQRDLLPLVEGTTVNTKYGIIKTDHILFIASGAFHLAKPSDLIPELQGRFPIRVEL 356
SR GVQRDLLPLVEG+TV+TK+G++KTDHILFIASGAF +A+PSDLIPELQGR PIRVEL
Sbjct: 140 SREGVQRDLLPLVEGSTVSTKHGMVKTDHILFIASGAFQVARPSDLIPELQGRLPIRVEL 199
Query: 357 DSLSISDFTRIMTSTNVCLTKQYEALLATEGIKIEFVDDGIQRLAEIAYCINERTENIGA 416
+LS +DF RI+T + LT+QY+AL+ATEG+ I F D ++++AE A+ +NE+TENIGA
Sbjct: 200 TALSAADFERILTEPHASLTEQYKALMATEGVNIAFTTDAVKKIAEAAFRVNEKTENIGA 259
Query: 417 RRLYTAMEKLLEEVSFN---SNNISLLVDADYVNSRLGDLSINEDLSRYVL 464
RRL+T ME+L++++SF+ N ++ +DA YV LG++ NEDLSR++L
Sbjct: 260 RRLHTVMERLMDKISFSASDMNGQTVNIDAAYVADALGEVVENEDLSRFIL 310
Score = 51.9 bits (125), Expect = 1e-07
Identities = 45/78 (57%), Positives = 56/78 (71%), Gaps = 9/78 (11%)
Query: 82 VGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDIS---IKQTREF--- 135
VGKTEIARRLAKL+NAPFIK+EATKFTEVGYVG++VD+IIRDL D + I +
Sbjct: 61 VGKTEIARRLAKLANAPFIKVEATKFTEVGYVGKEVDSIIRDLTDSAGGAIDAVEQNGIV 120
Query: 136 ---EINKVRTRAEDAAED 150
EI+K+ + E + D
Sbjct: 121 FIDEIDKICKKGEYSGAD 138
>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 = 114 bits (287), Expect = 3e-28
Identities = 72/241 (29%), Positives = 106/241 (43%), Gaps = 61/241 (25%)
Query: 264 QKAINNVE--QNGIIFLDEIDKITTRSSQNNNT--DISRAGVQRDLLPLVEGTTVNT--- 316
Q + NV+ Q GI+F+DEIDKI+ R S+N + D+S GVQ+ LL +VEG+ VN
Sbjct: 127 QASDWNVQKAQKGIVFIDEIDKIS-RLSENRSITRDVSGEGVQQALLKIVEGSLVNIPPK 185
Query: 317 --------KYGIIKTDHILFIASGAF--------------------------------HL 336
+ I T ILFI +GAF HL
Sbjct: 186 GGRKHPEGNFIQIDTSDILFICAGAFDGLAEIIKKRTTQNVLGFTQEKMSKKEQEAILHL 245
Query: 337 AKPSDL-----IPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEGIKIE 391
+ DL IPEL GR P+ LDS+S+ I+ L KQY+ L + + +
Sbjct: 246 VQTHDLVTYGLIPELIGRLPVLSTLDSISLEAMVDILQKPKNALIKQYQQLFKMDEVDLI 305
Query: 392 FVDDGIQRLAEIAYCINERTENIGARRLYTAMEKLLEEVSF---NSNNISLLVDADYVNS 448
F ++ I+ +A++A ER GAR L +E ++ F + + D V
Sbjct: 306 FEEEAIKEIAQLAL---ER--KTGARGLRAIIEDFCLDIMFDLPKLKGSEVRITKDCVLK 360
Query: 449 R 449
+
Sbjct: 361 Q 361
Score = 51.1 bits (123), Expect = 4e-07
Identities = 20/43 (46%), Positives = 27/43 (62%)
Query: 83 GKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLI 125
GKT +A+ LAK + P +AT TE GYVG DV+ I+ L+
Sbjct: 84 GKTLMAQTLAKHLDIPIAISDATSLTEAGYVGEDVENILTRLL 126
>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 = 109 bits (275), Expect = 1e-26
Identities = 67/225 (29%), Positives = 97/225 (43%), Gaps = 62/225 (27%)
Query: 264 QKAINNVE--QNGIIFLDEIDKITTRSSQNNNT--DISRAGVQRDLLPLVEGTTVNT--- 316
QK +V+ Q GI+++D+IDKI+ R S N + D+S GVQ+ LL L+EGT
Sbjct: 106 QKCDYDVQKAQRGIVYIDQIDKIS-RKSDNPSITRDVSGEGVQQALLKLIEGTVAAVPPQ 164
Query: 317 --------KYGIIKTDHILFIASGAF---------------------------------- 334
++ + T ILFI GAF
Sbjct: 165 GGRKHPQQEFLQVDTSKILFICGGAFAGLDKVISHRVETGSGIGFGATVKAKSDKASEGE 224
Query: 335 --HLAKPSDL-----IPELQGRFPIRVELDSLSISDFTRIMTSTNVCLTKQYEALLATEG 387
+P DL IPE GR P+ L+ LS +I+ LTKQY+AL EG
Sbjct: 225 LLAQVEPEDLIKFGLIPEFIGRLPVVATLNELSEEALIQILKEPKNALTKQYQALFNLEG 284
Query: 388 IKIEFVDDGIQRLAEIAYCINERTENIGARRLYTAMEKLLEEVSF 432
+ +EF D+ + +A+ A R GAR L + +E L + +
Sbjct: 285 VDLEFRDEALDAIAKKAM---AR--KTGARGLRSIVEAALLDTMY 324
Score = 50.7 bits (122), Expect = 5e-07
Identities = 22/43 (51%), Positives = 29/43 (67%)
Query: 83 GKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLI 125
GKT +A LA+L + PF +AT TE GYVG DV+ II+ L+
Sbjct: 63 GKTLLAETLARLLDVPFTMADATTLTEAGYVGEDVENIIQKLL 105
>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 = 61.4 bits (148), Expect = 4e-10
Identities = 65/459 (14%), Positives = 128/459 (27%), Gaps = 132/459 (28%)
Query: 105 TKFTEVGYVGRDV-----DTIIRDL--IDI-----SIKQTREF-EINKVRTRAEDAAEDR 151
+ E Y +D+ D + + D+ SI E I + R
Sbjct: 9 FETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGT--LR 66
Query: 152 VIDILVPSKEK-------SNLDTDFN-------NENNN--------ISTR-------QIF 182
+ L+ +E+ L ++ E I R Q+F
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 183 RKR----------LREGALDNKEIEIELNDTGPHMEI----MSPPGMEEMTAQ------I 222
K LR+ L EL P + + G + +
Sbjct: 127 AKYNVSRLQPYLKLRQALL-------ELR---PAKNVLIDGVLGSGKTWVALDVCLSYKV 176
Query: 223 KTMFSV------IGNHRKKTRKIKIREAIKLLIDEEANKLLNEDEIQQKAINNVE----- 271
+ + N +++ + + ID + + I++++
Sbjct: 177 QCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRR 236
Query: 272 -------QNGIIFLDEI-DK-------------ITTRSSQNNNTDISRAGVQRDLLPLVE 310
+N ++ L + + +TTR TD A + L
Sbjct: 237 LLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFK--QVTDFLSAATTTHI-SLDH 293
Query: 311 GTTVNTKYGIIKTDHILFIASGAFHLAKPSDLIPELQGRFPIRVELDSLSISDFTRIMTS 370
+ T D + + +P DL E+ P R+ + + SI D + T
Sbjct: 294 HSMTLTP------DEVKSLLLKYLDC-RPQDLPREVLTTNPRRLSIIAESIRDG--LATW 344
Query: 371 TNVCLTKQYEALLATEGIKIEFVDDGIQR-----LAEIAYCINERTENIGAR---RLYTA 422
N + L + ++ R L+ + + +I ++
Sbjct: 345 DNW-KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS-----VFPPSAHIPTILLSLIWFD 398
Query: 423 MEKLLEEVSFNSNNISLLVDADYVNSRLGDLSINEDLSR 461
+ K V N + LV+ S + SI +L
Sbjct: 399 VIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKV 437
>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 = 43.9 bits (103), Expect = 1e-04
Identities = 49/332 (14%), Positives = 94/332 (28%), Gaps = 126/332 (37%)
Query: 11 GVKAVKIGTNACENAPSANNL--------RNKFGIRKAILKASVYIDAPNTRANNISRNN 62
G + +G + + + +A ++ ++ +G +IL +I NN
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGF--SIL--------------DIVINN 1668
Query: 63 PV-------------IREN------NVILDMVIKVLLLVGKTEIARRLAKLS-NAPFIKI 102
PV IREN I+D +K + EI + + +
Sbjct: 1669 PVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFK--EINEHSTSYTFRSEKGLL 1726
Query: 103 EATKFTE-----VGYVGRDVDTIIRDLIDISIKQTR---------E------------FE 136
AT+FT+ + DL + E E
Sbjct: 1727 SATQFTQPALTLMEKA------AFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIE 1780
Query: 137 --INKVRTRAEDAAEDRVIDILVPSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNK 194
+ V R + + VP E + N ++ + AL
Sbjct: 1781 SLVEVVFYRG------MTMQVAVPRDELGRSNYGMIAINPG----RV-AASFSQEALQ-Y 1828
Query: 195 EIEIELNDTGPHMEIMSP-----PGMEEMTAQIKTMFSVIGNHRKKTRKIKIREAIKLLI 249
+E TG ++ Q V + A+
Sbjct: 1829 VVERVGKRTG---WLVEIVNYNVENQ-----QY-----VAAGDLR---------AL---- 1862
Query: 250 DEEANKLLNEDEIQQKAINNVEQNGIIFLDEI 281
+ +LN ++Q+ I+ +E + L+E+
Sbjct: 1863 -DTVTNVLNFIKLQK--IDIIELQKSLSLEEV 1891
Score = 42.0 bits (98), Expect = 4e-04
Identities = 47/241 (19%), Positives = 76/241 (31%), Gaps = 77/241 (31%)
Query: 225 MFSVIGNHRKKTRKI--KIREAIKLLIDEEANKLLNEDEIQQKAINNVEQNGIIFLDEID 282
+F I + + KT KI +I E LL+ + Q A + L
Sbjct: 1692 IFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPA---------LTL---- 1738
Query: 283 KITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGIIKTD-----HIL--FIA----S 331
+ +A DL G+I D H L + A +
Sbjct: 1739 -------------MEKA-AFEDL----------KSKGLIPADATFAGHSLGEYAALASLA 1774
Query: 332 GAFHLAKPSDLIPEL---QGRFPIR-VELDSLSISDFTRIMTSTN---VCLTKQYEALLA 384
+ L+ E+ +G V D L S++ M + N V + EAL
Sbjct: 1775 DVMSI---ESLV-EVVFYRGMTMQVAVPRDELGRSNYG--MIAINPGRVAASFSQEALQY 1828
Query: 385 TEGIKIEFVDDGIQRLAEIA-YCINERTENI---GARRLYTAMEKLLEEVSFN-SNNISL 439
+E V L EI Y N + G R A++ + ++F I +
Sbjct: 1829 V----VERVGKRTGWLVEIVNY--NVENQQYVAAGDLR---ALDTVTNVLNFIKLQKIDI 1879
Query: 440 L 440
+
Sbjct: 1880 I 1880
Score = 38.1 bits (88), Expect = 0.007
Identities = 45/254 (17%), Positives = 83/254 (32%), Gaps = 87/254 (34%)
Query: 200 LNDTGPHME-IMSPPGMEEMTAQIKTMFSVIGNHRKKTRKIKIREAIKLLIDEEANKLLN 258
L D+ + E + SP M S+ ++ ++++ + + N L
Sbjct: 324 LEDSLENNEGVPSP------------MLSISNLTQE-----QVQDYV-----NKTNSHLP 361
Query: 259 EDEIQQKAINNVEQNG----II---------FLDEIDKITTRSSQNNNTDISRA-GVQRD 304
+ Q I+ V NG ++ + K S D SR +R
Sbjct: 362 AGK--QVEISLV--NGAKNLVVSGPPQSLYGLNLTLRKAKAPS----GLDQSRIPFSERK 413
Query: 305 LLPLVEGTTVNTKYGIIKTDHILFIASGAFH---LAKPSDLIPELQGRFPIRVELDSLSI 361
L + ++ L +AS FH L SDLI + + + + I
Sbjct: 414 L-------KFSNRF--------LPVAS-PFHSHLLVPASDLINKDLVKNNVSFNAKDIQI 457
Query: 362 --------SDFTRIMTSTNV------CLTKQ---YEALLATEGIKI-EFVDDGIQRLAEI 403
SD R++ S ++ C+ + +E + I +F G L +
Sbjct: 458 PVYDTFDGSDL-RVL-SGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVL 515
Query: 404 AYCINERTENIGAR 417
+ + T G R
Sbjct: 516 THRNKDGT---GVR 526
>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 = 36.6 bits (85), Expect = 0.011
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 83 GKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDL 124
GKT +A ++A+ SN PFIKI + +G+ ++ +
Sbjct: 76 GKTALAAKIAEESNFPFIKICSPDKM-IGFSETAKCQAMKKI 116
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 33.8 bits (76), Expect = 0.053
Identities = 11/39 (28%), Positives = 18/39 (46%), Gaps = 11/39 (28%)
Query: 234 KKTRKIKIREAIKLLIDEEANKLLNEDEIQQKAIN-NVE 271
K+ K K++ ++KL D+ A L AI +E
Sbjct: 19 KQALK-KLQASLKLYADDSAPAL---------AIKATME 47
Score = 32.2 bits (72), Expect = 0.17
Identities = 9/28 (32%), Positives = 15/28 (53%), Gaps = 7/28 (25%)
Query: 84 KTEIARRLA---KL---SNAPFIKIEAT 105
K + ++L KL +AP + I+AT
Sbjct: 19 KQAL-KKLQASLKLYADDSAPALAIKAT 45
>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 = 34.0 bits (78), Expect = 0.12
Identities = 24/98 (24%), Positives = 46/98 (46%), Gaps = 18/98 (18%)
Query: 261 EIQQKAINNVEQNGIIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGI 320
+ ++A N IIF+DE+D I + + + R Q LL L++ G+
Sbjct: 288 KAFEEAEKN--APAIIFIDELDAIAPKREKTHGEVERRIVSQ--LLTLMD--------GL 335
Query: 321 IKTDHILFIASGAFHLAKPSDLIPELQ--GRFPIRVEL 356
+ H++ +A+ +P+ + P L+ GRF V++
Sbjct: 336 KQRAHVIVMAAT----NRPNSIDPALRRFGRFDREVDI 369
Score = 28.2 bits (63), Expect = 6.6
Identities = 21/94 (22%), Positives = 36/94 (38%), Gaps = 28/94 (29%)
Query: 82 VGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQTREFEINKVR 141
GKT IAR +A + A F I +I K E E + +R
Sbjct: 249 TGKTLIARAVANETGAFFFLINGP--------------------EIMSKLAGESE-SNLR 287
Query: 142 TRAEDAAED-------RVIDILVPSKEKSNLDTD 168
E+A ++ +D + P +EK++ + +
Sbjct: 288 KAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVE 321
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 31.4 bits (72), Expect = 0.74
Identities = 9/24 (37%), Positives = 14/24 (58%)
Query: 82 VGKTEIARRLAKLSNAPFIKIEAT 105
GKT +A +A+ +NA +I A
Sbjct: 61 TGKTTLAEVIARYANADVERISAV 84
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman fold,
hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 30.5 bits (69), Expect = 1.2
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 5/36 (13%)
Query: 78 VLLL----VGKTEIARRLAK-LSNAPFIKIEATKFT 108
V LL + K+ IARRL NA + T+F+
Sbjct: 44 VFLLGPPGIAKSLIARRLKFAFQNARAFEYLMTRFS 79
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 29.5 bits (67), Expect = 2.1
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 4/36 (11%)
Query: 275 IIFLDEIDKI-TTRSSQNNNTDISRAGVQRDLLPLV 309
IIF+DEID I R+ D VQR L+ L+
Sbjct: 113 IIFIDEIDAIAAKRTDALTGGD---REVQRTLMQLL 145
>2oln_A NIKD protein; flavoprotein, rossmann fold, oxidoreductase; HET:
FAD; 1.15A {Streptomyces tendae} PDB: 2olo_A* 3hzl_A*
2q6u_A*
Length = 397
Score = 29.7 bits (67), Expect = 2.1
Identities = 15/65 (23%), Positives = 26/65 (40%), Gaps = 12/65 (18%)
Query: 298 RAGVQ-------RDLLPLVEGTTVNTKYGIIKTDHILFIASGAFHLAKPSDLIPELQGRF 350
AG +L+P +G +V T G + ++ +A G + +DL+ L R
Sbjct: 165 AAGATLRAGETVTELVPDADGVSVTTDRGTYRAGKVV-LACGPYT----NDLLEPLGARL 219
Query: 351 PIRVE 355
V
Sbjct: 220 AYSVY 224
>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 = 29.1 bits (65), Expect = 2.2
Identities = 17/89 (19%), Positives = 26/89 (29%), Gaps = 22/89 (24%)
Query: 74 MVIKVLLLV------GKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDI 127
M L++V GKT +++ LA P + D + D
Sbjct: 2 MQTPALIIVTGHPATGKTTLSQALATGLRLPLL---------------SKDAFKEVMFDG 46
Query: 128 SIKQTREFEINKVRTRAEDAAEDRVIDIL 156
RE+ +V A IL
Sbjct: 47 LGWSDREWS-RRVGATAIMMLYHTAATIL 74
>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 = 29.5 bits (67), Expect = 2.8
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 11/46 (23%)
Query: 82 VGKTEIARRLAKLSNAPFIKIEATKFTEV-----------GYVGRD 116
VGKTE+ +L+K ++ + +++ E GYVG D
Sbjct: 499 VGKTEVTVQLSKALGIELLRFDMSEYMERHTVSRLIGAPPGYVGFD 544
>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 = 29.3 bits (66), Expect = 2.8
Identities = 20/119 (16%), Positives = 50/119 (42%), Gaps = 18/119 (15%)
Query: 275 IIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGIIKTDHILFIASGAF 334
+IF+DEID + ++ + R ++ + L ++G T +++ D IL + +
Sbjct: 179 VIFIDEIDSLLSQRGDGEHESSRR--IKTEFLVQLDGATTSSE------DRILVVGA--- 227
Query: 335 HLAKPSDLIPELQGRFPIRVELDSLSISD----FTRIMTSTNVCLTKQYEALLA--TEG 387
+P ++ + R R+ + S +M+ CL+++ + ++
Sbjct: 228 -TNRPQEIDEAARRRLVKRLYIPLPEASARKQIVINLMSKEQCCLSEEEIEQIVQQSDA 285
>1dct_A Protein (modification methylase HAEIII); enzyme, cytosine
methylase, transferase/DNA complex; HET: DNA C49 5CM;
2.80A {Haemophilus influenzae biotypeaegyptius} SCOP:
c.66.1.26
Length = 324
Score = 28.9 bits (65), Expect = 3.4
Identities = 21/127 (16%), Positives = 40/127 (31%), Gaps = 4/127 (3%)
Query: 121 IRDLIDISIKQTREFEINKVRTRAEDAAEDRVIDILVPSKEKSNLDTDFNNENNNISTRQ 180
R ++I+ I +D I L +K N N+E S
Sbjct: 161 FRKELNINYLPPIPHLIKPTFKDVIWDLKDNPIPALDKNKTNGNKCIYPNHEYFIGSYST 220
Query: 181 IFRKRLREGALDNKEIEIELNDTGPHMEIMSPPGMEEMTAQIKTMFSVIGNHRKKTRKIK 240
IF R R + ++ + + +P M K + + R++
Sbjct: 221 IFMSRNRVRQWNEPAFTVQASGRQCQLHPQAPV----MLKVSKNLNKFVEGKEHLYRRLT 276
Query: 241 IREAIKL 247
+RE ++
Sbjct: 277 VRECARV 283
>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase,
antibiotic resistance, phosphorylation, mononucleoti
binding fold; HET: ATP; 2.50A {Streptomyces venezuelae}
SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A*
1qhy_A*
Length = 178
Score = 28.2 bits (62), Expect = 3.8
Identities = 11/80 (13%), Positives = 21/80 (26%), Gaps = 5/80 (6%)
Query: 74 MVIKVLLLV-----GKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDIS 128
M ++++L GK+ I R L + P++ E + +
Sbjct: 1 MTTRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAMPLKMQSAEGGIEFDADG 60
Query: 129 IKQTREFEINKVRTRAEDAA 148
AE
Sbjct: 61 GVSIGPEFRALEGAWAEGVV 80
>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 = 28.1 bits (63), Expect = 4.4
Identities = 6/19 (31%), Positives = 10/19 (52%)
Query: 82 VGKTEIARRLAKLSNAPFI 100
K+ +A +L+K P I
Sbjct: 12 CFKSTVAAKLSKELKYPII 30
>4duh_A DNA gyrase subunit B; structure-based drug design, antibacterial,
DNA gyrase B, GY isomerase-isomerase inhibitor complex;
HET: DNA RLI; 1.50A {Escherichia coli} PDB: 1aj6_A*
1kzn_A* 3g7e_A*
Length = 220
Score = 27.9 bits (63), Expect = 5.4
Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 8/45 (17%)
Query: 158 PSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNKEIEIELND 202
PS E T+F E I KRLRE + N + I L D
Sbjct: 171 PSLETFTNVTEFEYE--------ILAKRLRELSFLNSGVSIRLRD 207
>1zxm_A TOPO IIA ATPase, DNA topoisomerase II, alpha isozyme; GHKL
nucleotide-binding fold; HET: DNA ANP; 1.87A {Homo
sapiens} PDB: 1zxn_A*
Length = 400
Score = 28.4 bits (64), Expect = 5.6
Identities = 8/46 (17%), Positives = 18/46 (39%), Gaps = 6/46 (13%)
Query: 158 PSKEKSNLDTDFNNENNNISTRQIFRKRLREGALDNKEIEIELNDT 203
P K F ++ + + +R + A K++++ LN
Sbjct: 193 PDLSK------FKMQSLDKDIVALMVRRAYDIAGSTKDVKVFLNGN 232
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 28.2 bits (63), Expect = 5.9
Identities = 7/55 (12%), Positives = 22/55 (40%), Gaps = 2/55 (3%)
Query: 261 EIQQKAINNVEQNG--IIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTT 313
+ ++A + + +F++++D R ++ V L+ + + T
Sbjct: 86 QRYREAAEIIRKGNMCCLFINDLDAGAGRMGGTTQYTVNNQMVNATLMNIADNPT 140
>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A
{Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A
3n2e_A*
Length = 168
Score = 27.5 bits (62), Expect = 6.7
Identities = 9/50 (18%), Positives = 19/50 (38%), Gaps = 15/50 (30%)
Query: 82 VGKTEIARRLAKLSNAPFIKIEATKFTEVGYVGRDVDTIIRDLIDISIKQ 131
GK+ +A+ L + D D II + + +S+++
Sbjct: 18 SGKSSLAQELGLALKLEVL---------------DTDMIISERVGLSVRE 52
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 27.9 bits (62), Expect = 7.1
Identities = 16/80 (20%), Positives = 32/80 (40%), Gaps = 12/80 (15%)
Query: 275 IIFLDEIDKITTRSSQNNNTDISRAGVQRDLLPLVEGTTVNTKYGIIKTDHILFIASGAF 334
IIF+D++D + + + R ++ + L +G D +L + +
Sbjct: 210 IIFIDQVDSLLCERREGEHDASRR--LKTEFLIEFDGVQSAGD------DRVLVMGA--- 258
Query: 335 HLAKPSDLIPELQGRFPIRV 354
+P +L + RF RV
Sbjct: 259 -TNRPQELDEAVLRRFIKRV 277
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
0.317 0.135 0.363
Gapped
Lambda K H
0.267 0.0814 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,981,704
Number of extensions: 451410
Number of successful extensions: 1093
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1072
Number of HSP's successfully gapped: 75
Length of query: 464
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 367
Effective length of database: 3,993,456
Effective search space: 1465598352
Effective search space used: 1465598352
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: 59 (26.3 bits)