RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 008744
(555 letters)
>1f7u_A Arginyl-tRNA synthetase; RNA-protein complex, aminoacylation; HET:
PSU 1MG 2MG H2U M2G 5MC 5MU 1MA ARG; 2.20A
{Saccharomyces cerevisiae} SCOP: a.27.1.1 c.26.1.1
d.67.2.1 PDB: 1bs2_A* 1f7v_A*
Length = 607
Score = 646 bits (1668), Expect = 0.0
Identities = 153/562 (27%), Positives = 252/562 (44%), Gaps = 38/562 (6%)
Query: 10 NVKRELEKVFDLALKATVPNETD-VRPLIAACT-AKFGDYQCNNAMGLWSKIKGKGTEFK 67
N+ + L ++ + P + + GD +IKG
Sbjct: 30 NIVDLMRNYISQELSKISGVDSSLIFPALEWTNTMERGDLLIPIPR---LRIKGAN---- 82
Query: 68 GPQPVGQAIMKNLPPSEMIESCSVAGPGFVNVVLSKNWMAKNIQKMLVDGIET--WAPKL 125
P+ + + P + +E GP F+ + ++AK + ++ E +
Sbjct: 83 -PKDLAVQWAEKFPCGDFLEKVEANGP-FIQFFFNPQFLAKLVIPDILTRKEDYGSCKLV 140
Query: 126 RVKKAVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNVEVLRRNHVGDWGTQFGMLI 185
KK +++FSSPNIAK H GHLRSTIIG LA + E EV+R N++GDWG QFG+L
Sbjct: 141 ENKKVIIEFSSPNIAKPFHAGHLRSTIIGGFLANLYEKLGWEVIRMNYLGDWGKQFGLLA 200
Query: 186 EYLFEKFPNSEDANETAIGELQEFYRRSKNRFD-------SDPAFKERAQQAVVRLQSGE 238
FE++ N E + I L + Y R + + + +A++ R++ G+
Sbjct: 201 VG-FERYGNEEALVKDPIHHLFDVYVRINKDIEEEGDSIPLEQSTNGKAREYFKRMEDGD 259
Query: 239 PKYHEAWAQICEISRKEFDKVYKRLRVDL-EEKGES-FYNPYIPGVIDELSKQGLVEESQ 296
+ + W + E S +++ Y RL + GES + ID ++GL E +
Sbjct: 260 EEALKIWKRFREFSIEKYIDTYARLNIKYDVYSGESQVSKESMLKAIDLFKEKGLTHEDK 319
Query: 297 GARVIFIEGVNIPL---IIVKSDGGFNYASTDLAALWYRLNEEKAEWIIYVTDVGQQLHF 353
GA +I + N L I+ KSDG Y + D+ A R + + +IYV Q LH
Sbjct: 320 GAVLIDLTKFNKKLGKAIVQKSDGTTLYLTRDVGAAMDRYEKYHFDKMIYVIASQQDLHA 379
Query: 354 DMVFSAAKRAGWLSADDSTYPKASHVGFGLVLGEDGKRLRTRFSEVVRLVDLLDEAKNRS 413
F K+ G+ A HV FG+V G + TR VV L ++L+E K +
Sbjct: 380 AQFFEILKQMGFEWAK-----DLQHVNFGMVQG-----MSTRKGTVVFLDNILEETKEKM 429
Query: 414 KAVLIERGKDKEWTEEELEQTAEAVGYGAAKYFDLKNNRLTNYTFSFDQMLNDKGNTAVY 473
V +++ ++K E E+ A+ VG A D++ R+ NY F +++ML+ +G+T Y
Sbjct: 430 HEV-MKKNENKYAQIEHPEEVADLVGISAVMIQDMQGKRINNYEFKWERMLSFEGDTGPY 488
Query: 474 LLYAHARICSIIRKSGKDIEELKKTGSL-VLDHADERALGLHLLHFSEVIEEALTNLLPN 532
L YAH+R+ S+ R + +E +L + L L + +V+ A+ P
Sbjct: 489 LQYAHSRLRSVERNASGITQEKWINADFSLLKEPAAKLLIRLLGQYPDVLRNAIKTHEPT 548
Query: 533 VVCEYLYNLSEYFTRFYSNCQV 554
V YL+ L+ + Y V
Sbjct: 549 TVVTYLFKLTHQVSSCYDVLWV 570
>2zue_A Arginyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP-binding,
cytoplasm, ligase, nucleotide-binding, protein
biosynthesis, ligase/RNA complex; HET: ANP; 2.00A
{Pyrococcus horikoshii} PDB: 2zuf_A
Length = 629
Score = 553 bits (1427), Expect = 0.0
Identities = 127/603 (21%), Positives = 243/603 (40%), Gaps = 72/603 (11%)
Query: 10 NVKRELEKVFDLALKATVPNETDVRPLIAACTAKFGDYQCNNAMGLWSKIKGKGTEFKGP 69
++ +++ + +K P L K GD+ A L +K + P
Sbjct: 4 EIRESVKERIEEIIKEIAPQWEGEIELKETPDPKLGDFGTPIAFKLAKLLK------RPP 57
Query: 70 QPVGQAIMKNLPPSEMIESCSV-AGPGFVNVVLSKNWMAKNIQKMLVDGIETW--APKLR 126
+ + I++ L + V A G++NV + A+ + ++ + + + +
Sbjct: 58 IEIAEKIVEKLKLNLPEGIKDVKAVNGYINVFIDYPHFARILINDILAKGDRFGSSEIGK 117
Query: 127 VKKAVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNVEVLRRNHVGDWGTQFGMLIE 186
KK +V+ +S N K +H+GH R+ I+GD +AR+L F EV +N++ D G QF +
Sbjct: 118 GKKVIVEHTSVNPTKPLHMGHARNAILGDVMARILRFLGYEVEVQNYIDDLGIQFAQVYW 177
Query: 187 YL----FEKFPNSEDANETAIGE------LQEFYRRSKNRFDSDPAFKERAQQAVVRLQS 236
E + E + + L Y R + +P + + + +L+S
Sbjct: 178 GYLRLKEEFERIMNELRERGLKDNPIDHALGLLYVEVNRRLEDNPELENEIRDIMKKLES 237
Query: 237 GEPKYHEAWAQICEISRKEFDKVYKRLRVDLEEKGESFYNPYIPGVIDELSKQGLV---- 292
GE + ++ K+ + + + E + ++ LSK
Sbjct: 238 GELYGRKLAEEVVRAQMVTTYKLGVKYDLLVWE-SDIVRRKLFEIALELLSKNENFYIPS 296
Query: 293 -EESQGARVIFIEGVNI-----PLIIVKSDGGFNYASTDLAALWYRLNE----------- 335
+ +GA V+ + + L++ +SDG Y D+A ++ +
Sbjct: 297 DGKYRGAFVMDLRKLFPDMKNPILVLRRSDGTATYTGKDIAYHLWKFGKIDVDLLYKEWD 356
Query: 336 -----------------EKAEWIIYVTDVGQQLHFDMVFSAAKRAGWLSADDSTYPKASH 378
A +I V Q+ + A + G+ A + Y H
Sbjct: 357 STTWTTAPDGKSMPNKFGNANIVINVIGAEQKHPQLAIKYALQLLGFEDAAANLY----H 412
Query: 379 VGFGLVLGEDGKRLRTRFSEVVRLV--DLLDEAKNRSKAVLIERGKDKEWTEEELEQTAE 436
+ + V +GK R V +++ EA R++ ++ E+ ++EE + AE
Sbjct: 413 LAYEHVERPEGK-FSGRKGTWVGFTVDEVIQEAVKRARELIEEKNPA--LSDEEKAEVAE 469
Query: 437 AVGYGAAKYFDLKNNRLTNYTFSFDQMLNDKGNTAVYLLYAHARICSIIRKSGK-----D 491
VG GA +Y +K + F ++ +LN +G +A Y+ YAHAR SI+RK+ + D
Sbjct: 470 KVGIGAIRYNLIKYSPDKKIIFRWEDVLNFEGESAPYIQYAHARCSSILRKAEEEGIKVD 529
Query: 492 IEELKKTGSLVLDHADERALGLHLLHFSEVIEEALTNLLPNVVCEYLYNLSEYFTRFYSN 551
E L K ER L + L F ++E+A ++ P+++ + L+ F +FY +
Sbjct: 530 PETLFKNADFTKLSERERELVIMLSKFPRIVEQAGKDVKPHLIAWFANELASLFNKFYMD 589
Query: 552 CQV 554
V
Sbjct: 590 HPV 592
>1iq0_A Arginyl-tRNA synthetase; riken structural genomics/proteomics
initiative, RSGI, structural genomics, ligase; 2.30A
{Thermus thermophilus} SCOP: a.27.1.1 c.26.1.1 d.67.2.1
Length = 592
Score = 514 bits (1327), Expect = e-178
Identities = 139/584 (23%), Positives = 238/584 (40%), Gaps = 77/584 (13%)
Query: 11 VKRELEKVFDLALKATVPNETDVRPLIAACT-AKFGDYQCNNAMGLWSKIKGKGTEFKGP 69
++R LE+ ALK VR +A K GDY L +++ K P
Sbjct: 2 LRRALEEAIAQALKEM---GVPVRLKVARAPKDKPGDYGVP-LFALAKELR------KPP 51
Query: 70 QPVGQAIMKNLPPSEMIESCSVAGPGFVNVVLSKNWMAKNIQKMLVDGIETWAPKLRVKK 129
Q + Q + LP E +E G G++N L + + +
Sbjct: 52 QAIAQELKDRLPLPEFVEEAVPVG-GYLNFRLRTEALLREALRPKAPFPRRP------GV 104
Query: 130 AVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNVEVLRRNHVGDWGTQFGMLIEYLF 189
+V+ +S N KE+HVGHLR+ +GD++AR+L ++ EVL N++ D G Q + L
Sbjct: 105 VLVEHTSVNPNKELHVGHLRNIALGDAIARILAYAGREVLVLNYIDDTGRQAAETLFAL- 163
Query: 190 EKFPNSEDANETAIGELQEFYRRSKNRFDSDPAFKERAQQAVVRLQSGEPKYH-EAWAQI 248
+ + D E Y R DP ++ L + E E +I
Sbjct: 164 RHYGLTWDGKEKYDHFAGRAYV----RLHQDPEYERLQPAIEEVLHALERGELREEVNRI 219
Query: 249 CEISRKEFDKVYKRLRVDLEEKGESFYNPYIPGVIDELSKQGLVEESQ-----GARVIFI 303
+ R + + E + + + L + V + GA V+
Sbjct: 220 LLAQMATMHALNARYDLLVWE-SDIVRAGLLQKALALLEQSPHVFRPREGKYAGALVMDA 278
Query: 304 EGVNI-----PLIIVKSDGGFNYASTDLAALWYRLNE----------------------- 335
V ++++S+G Y + D+A ++++
Sbjct: 279 SPVIPGLEDPFFVLLRSNGTATYYAKDIAFQFWKMGILEGLRFRPYENPYYPGLRTSAPE 338
Query: 336 -----EKAEWIIYVTDVGQQLHFDMVFSAAKRAGWLSADDSTYPKASHVGFGLVLGEDGK 390
KAE I V DV Q +V +A AG+ + + KA H+ + VL +G+
Sbjct: 339 GEAYTPKAEETINVVDVRQSHPQALVRAALALAGYPALAE----KAHHLAYETVLL-EGR 393
Query: 391 RLRTRFSEVVRLVDLLDEAKNRSKAVLIERGKDKEWTEEELEQTAEAVGYGAAKYFDLKN 450
++ R V + ++L+EA R++A++ E+ D + E+ A V GA ++ +K
Sbjct: 394 QMSGRKGLAVSVDEVLEEATRRARAIVEEKNPD----HPDKEEAARMVALGAIRFSMVKT 449
Query: 451 NRLTNYTFSFDQMLNDKGNTAVYLLYAHARICSIIRKSGKDIEELKKTGSLVLDHADERA 510
F + + L+ +G+T Y+ YAHAR SI+RK+G+ L ERA
Sbjct: 450 EPKKQIDFRYQEALSFEGDTGPYVQYAHARAHSILRKAGEWGAP-----DLSQATPYERA 504
Query: 511 LGLHLLHFSEVIEEALTNLLPNVVCEYLYNLSEYFTRFYSNCQV 554
L L LL F E + EA P+V+ +YL +L+ + +Y+ +
Sbjct: 505 LALDLLDFEEAVLEAAEERTPHVLAQYLLDLAASWNAYYNAREN 548
>3fnr_A Arginyl-tRNA synthetase; transferase, PSI-2, NYSGXRC, struc
genomics, protein structure initiative; 2.20A
{Campylobacter jejuni}
Length = 464
Score = 126 bits (319), Expect = 1e-31
Identities = 91/495 (18%), Positives = 173/495 (34%), Gaps = 119/495 (24%)
Query: 101 LSKNWMAKNIQKMLVDGIETWAPKLRVKKAVVDFSSPNIAKEMHVGHLRSTIIGDSLARM 160
LSK ++ + + L + + + + + ++++ S N +H+GH R + GD+L R+
Sbjct: 3 LSKTFLNELANQALTNPNDFTKGEKKQESFLLEYVSANPTGPLHIGHARGAVFGDTLTRL 62
Query: 161 LEFSNVEVLRRNHVGDWGTQFGMLIE-----YLFEKFPNSEDANETA-----IGEL-QEF 209
+ +V D G Q +L + + E I +L +E
Sbjct: 63 ARHLGYKFNTEYYVNDAGNQIYLLGLSILLSVKESILHENVEYPEQYYKGEYIVDLAKEA 122
Query: 210 YRRSKNRFDSDPAFKERAQQAVVRLQSGEPKYHEAWAQICEISRKEFDKVYKRLRVDLE- 268
+ + F S+ A A + + ++ ++ ++
Sbjct: 123 FEKFGKEFFSEENIPSLADWAK------------------DKMLVLIKQNLEQAKIKIDS 164
Query: 269 ---EKGESFYNPYIPGVIDELSKQGLVEESQGA-------------RVIFIEGVNIPLII 312
E+ S+Y+ + ++ L + + E +G RVI
Sbjct: 165 YVSER--SYYDA-LNATLESLKEHKGIYEQEGKIWLASSQKGDEKDRVI----------- 210
Query: 313 VKSDGGFNYASTDLAALWYRLN--EEKAEWIIYV--TDVGQQLHFDMV--FSAAKRAGWL 366
++ DG Y + D+ Y + I + D H + AA L
Sbjct: 211 IREDGRGTYLAADIV---YHKDKMSRGYGKCINIWGAD-----HHGYIPRMKAAMEF--L 260
Query: 367 SADDSTYPKASHVGFG-LV-LGEDGKRLR--TRFSEVVRLVDLLDEAKNRSKAVLIERGK 422
D + + +V L +DG+ + R + + D++DE G
Sbjct: 261 GFDSNNL----EIILAQMVSLLKDGEPYKMSKRAGNFILMSDVVDEI-----------GS 305
Query: 423 DKEWTEEELEQTAEAVGYGAAKYFDLKNNRLTNYTFSFDQML---NDKGNTAVYLLYAHA 479
D A +Y L ++ + FD D N Y+ YAHA
Sbjct: 306 D------------------ALRYIFL--SKKCDTHLEFDISDLQKEDSSNPVYYINYAHA 345
Query: 480 RICSIIRKSGKDIEELKKTGSLVLDHADERALGLHLLHFSEVIEEALTNLLPNVVCEYLY 539
RI + K+GK I+++ K L+ D L L+ V+ +A + +YL
Sbjct: 346 RIHQVFAKAGKKIDDVMKADLQSLNQ-DGVNLLFEALNLKAVLNDAFEARALQKIPDYLK 404
Query: 540 NLSEYFTRFYSNCQV 554
NL+ F +FY+ +V
Sbjct: 405 NLAANFHKFYNENKV 419
>3gdz_A Arginyl-tRNA synthetase; klebsiella pneumoniae subsp. pneumo 78578,
structural genomics, PSI-2; HET: MSE; 2.20A {Klebsiella
pneumoniae subsp}
Length = 109
Score = 86.3 bits (214), Expect = 1e-20
Identities = 27/108 (25%), Positives = 49/108 (45%), Gaps = 8/108 (7%)
Query: 10 NVKRELEKVFDLALKATVPNETDVRPLIAACT-AKFGDYQCNNAMGLWSKIKGKGTEFKG 68
N++ L + AL A D P + +FGDYQ N M + K+
Sbjct: 5 NIQALLSEKVSQALIAAGA-PADCEPQVRQSAKVQFGDYQANGVMAVAKKLG------MA 57
Query: 69 PQPVGQAIMKNLPPSEMIESCSVAGPGFVNVVLSKNWMAKNIQKMLVD 116
P+ + + ++ +L + + +AGPGF+N+ L ++A N+ + L
Sbjct: 58 PRQLAEQVLSHLDLNGIANKVEIAGPGFINIFLDPAFLADNVNRALQS 105
>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 = 55.8 bits (134), Expect = 3e-08
Identities = 44/197 (22%), Positives = 66/197 (33%), Gaps = 79/197 (40%)
Query: 357 FSAAKRAGWLSADD---STY-----------PKASHVGFGLVLGEDGKRLRTRFSEVVRL 402
AA+ W AD+ TY P + FG GE GKR+R +S
Sbjct: 1639 SKAAQDV-WNRADNHFKDTYGFSILDIVINNPVNLTIHFG---GEKGKRIRENYS----- 1689
Query: 403 VDLLDEAKNRSKAVLIERGKDKEWTEEELEQTAEAVGYGAAKYFDLKNNRLTNYTFSFDQ 462
A++ E D + E++ F N T+YTF ++
Sbjct: 1690 ------------AMIFETIVDGKLKTEKI--------------FKEINEHSTSYTFRSEK 1723
Query: 463 -MLNDKGNT--AVYLL-YAHARICSIIRKSGKDIEELKKTGSLVLDHADERALGLH---- 514
+L+ T A+ L+ A E+LK G + D A G H
Sbjct: 1724 GLLSATQFTQPALTLMEKA-------------AFEDLKSKGLIPADAT--FA-G-HSLGE 1766
Query: 515 ---LLHFSEV--IEEAL 526
L ++V IE +
Sbjct: 1767 YAALASLADVMSIESLV 1783
Score = 50.8 bits (121), Expect = 1e-06
Identities = 82/498 (16%), Positives = 141/498 (28%), Gaps = 184/498 (36%)
Query: 9 GNVK---RELEKVFDLALKATVPNETDVRPLIAACTAKFGDYQCNNAMGLWSKIKGKGTE 65
GN EL ++ T V LI + K+ +G
Sbjct: 164 GNTDDYFEELRDLYQ-----TYH--VLVGDLIKFSAETLSELIRTTLD--AEKVFTQGLN 214
Query: 66 F----KGPQPVGQAIMKNLPPSEMIESCSVAGPG-----FVN-VVLSKNW------MAKN 109
+ P P + + S ++ P + VV +K +
Sbjct: 215 ILEWLENPSNT--------PDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSY 266
Query: 110 IQKMLV--DGI---------ETWAPKLR-VKKAV-VDF--------SSPNIAKEMHVGHL 148
++ G+ ++W V+KA+ V F + PN + L
Sbjct: 267 LKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTS-------L 319
Query: 149 RSTIIGDSLAR-------MLEFSNVEVLRRNHVGDWGTQFGMLIEYLFEKFPNSEDANET 201
+I+ DSL ML ++ L + V D + P +
Sbjct: 320 PPSILEDSLENNEGVPSPML---SISNLTQEQVQD-------YVNKTNSHLPAGKQV--- 366
Query: 202 AIGELQEFYRRSKNRFDSDPAFKERAQQAVVRLQSGEPK--------YHEAWAQI-CEIS 252
I L N A+ VV SG P+ +A A + S
Sbjct: 367 EIS-L-------VN----------GAKNLVV---SGPPQSLYGLNLTLRKAKAPSGLDQS 405
Query: 253 RKEFDK----VYKR-LRVDLEEKGESFYNPYIPGVIDELSKQGLVEESQGARVIFIEG-- 305
R F + R L V F++ + D + + LV+ + +
Sbjct: 406 RIPFSERKLKFSNRFLPV-----ASPFHSHLLVPASDLI-NKDLVKNN-----VSFNAKD 454
Query: 306 VNIPLIIVKS--DGGFNYASTDLAALWYRLNEEKAEWIIYVTDVGQQLHFDMVFSAAKRA 363
+ IP V DG +DL L + +++ D +
Sbjct: 455 IQIP---VYDTFDG------SDLRVL--------------SGSISERI-VDCIIR--LPV 488
Query: 364 GWLSADDSTYPKASHVGFGLVLGEDGKRLRTRFSEVVRLVDLLDEAKNRSKAVLIERGKD 423
W + +T KA+H+ L G G L L K+ + +I G
Sbjct: 489 KW---ETTTQFKATHI---LDFGPGG---------ASGLGVLTHRNKDGTGVRVIVAG-- 531
Query: 424 KEWTEEELE-QTAEAVGY 440
L+ + G+
Sbjct: 532 ------TLDINPDDDYGF 543
Score = 49.3 bits (117), Expect = 3e-06
Identities = 64/400 (16%), Positives = 115/400 (28%), Gaps = 122/400 (30%)
Query: 157 LARMLEFSNVEVLRRNHVGDWGTQFGMLIEYLFEKF-----------------PNSEDAN 199
+ + L + + V + VG QF ++ +F D
Sbjct: 61 VGKFLGYVSSLV-EPSKVG----QFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTT 115
Query: 200 ETAIGE-LQEFY--RRSKNRFD---SDPAFKERAQQAVVRL------QSGEPKYHEAWAQ 247
E ++ + R R S+ A + +L Q G + +
Sbjct: 116 LVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQ-GNT---DDY-- 169
Query: 248 ICEISRKEFD---KVYKRLRVDLEEKGESFYNPYIPGVIDELSK--QGLVEESQGARVIF 302
F+ +Y+ Y+ + +I ++ L+ + A +F
Sbjct: 170 --------FEELRDLYQT------------YHVLVGDLIKFSAETLSELIRTTLDAEKVF 209
Query: 303 IEGVNI-----------------------PLIIVKSDGGFNYASTDLAALWYRLNEEKAE 339
+G+NI PLI V +Y T L + E
Sbjct: 210 TQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLA--HYVVT-AKLLGFT-PGELRS 265
Query: 340 WIIYVTDVGQQLHFDMVFSAAKRAGWLSADDSTYPKASHVGFGLVLGEDGKRLRTRFSEV 399
++ T Q L + + W S S KA V F + G R +
Sbjct: 266 YLKGATGHSQGLVTAVAIAETD--SWESFFVSVR-KAITVLFFI-----GVRCYEAYPNT 317
Query: 400 VRLVDLLDEAKNRSKAV----LIERGKDKEWTEEELEQTAEAVGYGAAKYFDLKNNRLTN 455
+L+++ ++ V L +E ++ + +T + G L N N
Sbjct: 318 SLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGA-KN 376
Query: 456 YTFSFDQMLNDKGNTAVYLLYAHARICSIIRK----SGKD 491
S G LY + +RK SG D
Sbjct: 377 LVVS--------GPPQS--LYG---LNLTLRKAKAPSGLD 403
Score = 35.0 bits (80), Expect = 0.070
Identities = 56/306 (18%), Positives = 94/306 (30%), Gaps = 124/306 (40%)
Query: 289 QG---------LVEESQGARVIFIE---------GVNIPLIIVKSD--------GGF--- 319
QG L + S+ A+ ++ G +I L IV ++ GG
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSI-LDIVINNPVNLTIHFGGEKGK 1682
Query: 320 ----NYAS------TDLAALWYRLNEEKAEW---IIYVTDVG-------QQ--LHFDMVF 357
NY++ D ++ +E E + ++ G Q L +
Sbjct: 1683 RIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL---TLM 1739
Query: 358 SAA-----KRAGWLSADDSTYPKASHVGF-GLVLGE------DGKRLRTRFSEVVRLV-- 403
A K G + AD + F G LGE + +V +V
Sbjct: 1740 EKAAFEDLKSKGLIPADAT---------FAGHSLGEYAALASLADVMS--IESLVEVVFY 1788
Query: 404 --DLLDEAKNRSK---------AVLIERGKDKEWTEEELEQTAEAVGYGAAKYFDLKNNR 452
+ A R + A+ R +++E L+ E VG +
Sbjct: 1789 RGMTMQVAVPRDELGRSNYGMIAINPGRVA-ASFSQEALQYVVERVGK--------RTGW 1839
Query: 453 L---TNYTFSFDQMLNDKGNT--------AVYLLYAHARICSIIRKSGKDIEELKKTGSL 501
L NY N + A+ + + + I+ DI EL+K+ SL
Sbjct: 1840 LVEIVNY--------NVENQQYVAAGDLRALDTV---TNVLNFIKLQKIDIIELQKSLSL 1888
Query: 502 --VLDH 505
V H
Sbjct: 1889 EEVEGH 1894
>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 = 55.6 bits (133), Expect = 3e-08
Identities = 77/551 (13%), Positives = 141/551 (25%), Gaps = 188/551 (34%)
Query: 119 ETWAPKLRVKKAVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNVEVLRRNHV---G 175
ET + + K + F + D +L S E+ +H+
Sbjct: 10 ETGEHQYQYKDILSVFE-DAFVDNFDCKD-----VQDMPKSIL--SKEEI---DHIIMSK 58
Query: 176 DWGTQFGMLIEYLFEKFPNSEDANETAIGE-LQEFYRRSKNRF---DSDPAFKERA-QQA 230
D + L L K E+ + + E L+ Y+ + P+ R +
Sbjct: 59 DAVSGTLRLFWTLLSK---QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ 115
Query: 231 VVRLQSGE---PKYHEAWAQICEISRKEFDKVYKRLRVDLEEKGESFYNPYI-----PGV 282
RL + KY+ +SR + Y +LR L E + G
Sbjct: 116 RDRLYNDNQVFAKYN--------VSRLQ---PYLKLRQALLELRP---AKNVLIDGVLGS 161
Query: 283 IDELSKQGLVEESQGARVIFIEGVNIPLIIVKSDGGF-----NYASTD-----LAALWYR 332
K + + + + F N S + L L Y+
Sbjct: 162 ----GKTWVALDV--CL-------SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ 208
Query: 333 LNEEKAEWIIYVTDVGQQLHFDMVFSAAKRAGWLSADDSTYPKA----SHV-------GF 381
++ + +++ ++H A R S Y +V F
Sbjct: 209 IDPNWTSRSDHSSNIKLRIHS---IQAELRRLLKSKP---YENCLLVLLNVQNAKAWNAF 262
Query: 382 GL---VLGEDGKRLRTRFSEVVRLVDLLDEAKNRSKAVLIERGKDKEWTEEE-LEQTAEA 437
L +L L TRF +V + A + L T +E +
Sbjct: 263 NLSCKIL------LTTRFKQVTDFLS----AATTTHISLDHH--SMTLTPDEVKSLLLKY 310
Query: 438 VGYGAAKYFDLK---------------------NNRLTNYTFSFDQMLNDKGNTAV---- 472
+ + DL N+ + DK T +
Sbjct: 311 LD---CRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNW----KHVNCDKLTTIIESSL 363
Query: 473 -----YLLYAHARICSIIRKSGK--------------------DIEELKKTGSLVLDHAD 507
S+ S + +L K SLV
Sbjct: 364 NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY-SLVEKQPK 422
Query: 508 ERALGLHLLHFSE-------------VIEE-------ALTNLLPNVVCEYLYN------- 540
E + + ++ +++ +L+P + +Y Y+
Sbjct: 423 ESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLK 482
Query: 541 ---LSEYFTRF 548
E T F
Sbjct: 483 NIEHPERMTLF 493
Score = 32.5 bits (73), Expect = 0.48
Identities = 50/324 (15%), Positives = 97/324 (29%), Gaps = 102/324 (31%)
Query: 78 KNLPPSEMIESCSVAGPGFVNVVLSKNWMAKNIQKMLVDGIETW-------APKL-RVKK 129
++LP E + P +++ I + + DG+ TW KL + +
Sbjct: 316 QDLPR----EVLTTN-PRRLSI----------IAESIRDGLATWDNWKHVNCDKLTTIIE 360
Query: 130 AVVDFSSPNIAKEMHVGHLRSTIIGDSLARMLEFSNV--EVLRRNHVGDWGTQFGMLIEY 187
+ ++ P ++M D L+ +++ +L W +
Sbjct: 361 SSLNVLEPAEYRKMF----------DRLSVFPPSAHIPTILLSLI----WFDVIKSDVMV 406
Query: 188 LFEKFPNS----EDANETAIGELQEFYRRSKNRFDSDPA----FKERAQQAVVRLQSGEP 239
+ K + E+ I + Y K + +++ A +
Sbjct: 407 VVNKLHKYSLVEKQPKESTIS-IPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLI 465
Query: 240 K------------YHEAWAQICEISRKEFDKVY-------KRLRVDLEEKGES------- 273
+H + E F V+ +++R D S
Sbjct: 466 PPYLDQYFYSHIGHHLKNIEHPE-RMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTL 524
Query: 274 ----FYNPYIPGVIDELSKQGLVEESQGARVIFIEGVNIPLIIVKSDGGFNYASTDLA-- 327
FY PYI E A + F+ + LI K TDL
Sbjct: 525 QQLKFYKPYI------CDNDPKYERLVNAILDFLPKIEENLICSK--------YTDLLRI 570
Query: 328 ALWYRLNEEKAEWIIYVTDVGQQL 351
AL + E++A I+ + +Q+
Sbjct: 571 AL---MAEDEA---IF-EEAHKQV 587
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 34.0 bits (77), Expect = 0.077
Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 15/74 (20%)
Query: 387 EDGKRLRTRFSEVVRLVDLLDEAKNRSKAVLIERGKD--KEWTEEELEQTAEAVGYGAAK 444
E ++ R + RL +L D A + E+ K +EW + + EQ +
Sbjct: 85 ESIRKWREEQRK--RLQEL-DAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNK------ 135
Query: 445 YFDLKNNRLTNYTF 458
NNR+ + F
Sbjct: 136 ----INNRIADKAF 145
Score = 29.0 bits (64), Expect = 3.3
Identities = 15/71 (21%), Positives = 27/71 (38%), Gaps = 17/71 (23%)
Query: 167 EVLRRNHVGDWGTQFGMLIEYLFEKFPNSEDAN-ETAIGELQEFYRR---------SKNR 216
E +R+ W + ++ L E E A +L+E+ +R NR
Sbjct: 85 ESIRK-----WREEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNR 139
Query: 217 FDSDPAF-KER 226
+D AF ++
Sbjct: 140 -IADKAFYQQP 149
>3k4o_A Isopentenyl phosphate kinase; small molecule kinase, ATP-binding,
transferase, methanocald jannaschii, isopentenyl
monophosphate; 2.05A {Methanocaldococcus jannaschii}
PDB: 3k4y_A* 3k52_A* 3k56_A*
Length = 266
Score = 34.1 bits (78), Expect = 0.081
Identities = 22/82 (26%), Positives = 30/82 (36%), Gaps = 15/82 (18%)
Query: 266 DLEEKGESFYNPYIPGVIDELSKQGLVEESQGARVIFIEGVNIPLIIVKSDGGFNYASTD 325
G+ I E+ K+ LV VI I++ G+ S D
Sbjct: 121 SFVVFGDKLIFD--TSAIKEMLKRNLVP------VIH------GDIVIDDKNGYRIISGD 166
Query: 326 LAALWYRLNEEKAEWIIYVTDV 347
Y NE KA+ I+Y TDV
Sbjct: 167 DIV-PYLANELKADLILYATDV 187
>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 = 33.4 bits (75), Expect = 0.083
Identities = 10/32 (31%), Positives = 18/32 (56%), Gaps = 12/32 (37%)
Query: 5 EENTGNVKRELE---KVF--D----LALKATV 27
E+ +K+ L+ K++ D LA+KAT+
Sbjct: 18 EKQA--LKK-LQASLKLYADDSAPALAIKATM 46
Score = 32.6 bits (73), Expect = 0.15
Identities = 8/45 (17%), Positives = 20/45 (44%), Gaps = 18/45 (40%)
Query: 108 KNIQKMLVDGIETWAPKLRVKKAVVDFSSPNIAKEMHVGHLRSTI 152
+ ++K L ++ +A D S+P +A +++T+
Sbjct: 20 QALKK-LQASLKLYAD---------D-SAPALA-------IKATM 46
>2a9g_A Arginine deiminase; arginine degradation pathway, catalyti
mechanism, hydrolase; HET: ARG; 2.30A {Pseudomonas
aeruginosa} SCOP: d.126.1.4 PDB: 1rxx_A 2abr_A* 2aci_A
2aaf_A*
Length = 418
Score = 32.1 bits (72), Expect = 0.45
Identities = 23/137 (16%), Positives = 40/137 (29%), Gaps = 8/137 (5%)
Query: 322 ASTDLAALWYRLNEEKAEWIIYVTDVGQQLHFDMVFSAAKRAGWLSADDSTYPKA--SHV 379
A +A + + + + +H D VFS R +P+ V
Sbjct: 248 AIGQVAQSLFAKGAAERVIVAGLPKSRAAMHLDTVFSFCDRDLVT-----VFPEVVKEIV 302
Query: 380 GFGLVLGEDGKRLRTRFSEVVRLVDLLDEAKNRSKAVLIERGKDKEWTEEE-LEQTAEAV 438
F L E ++++ E+ K ++E G + E E + V
Sbjct: 303 PFSLRPDPSSPYGMNIRREEKTFLEVVAESLGLKKLRVVETGGNSFAAEREQWDDGNNVV 362
Query: 439 GYGAAKYFDLKNNRLTN 455
N TN
Sbjct: 363 CLEPGVVVGYDRNTYTN 379
>1iy8_A Levodione reductase; oxidoreductase; HET: NAD; 1.60A {Leifsonia
aquatica} SCOP: c.2.1.2
Length = 267
Score = 31.4 bits (72), Expect = 0.62
Identities = 13/34 (38%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
L A V +E V + A T +FG D NNA
Sbjct: 67 LTTVADVSDEAQVEAYVTATTERFGRIDGFFNNA 100
>3tzq_B Short-chain type dehydrogenase/reductase; ssgcid, structural
genomics, seattle structural genomics CEN infectious
disease, oxidoreductase; 2.50A {Mycobacterium marinum}
Length = 271
Score = 31.3 bits (72), Expect = 0.69
Identities = 12/34 (35%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+ + NE VR LI FG D NNA
Sbjct: 60 VHHVVDLTNEVSVRALIDFTIDTFGRLDIVDNNA 93
>3vtz_A Glucose 1-dehydrogenase; rossmann fold, oxidoreductase, NAD
binding; 2.30A {Thermoplasma volcanium}
Length = 269
Score = 31.4 bits (72), Expect = 0.73
Identities = 12/33 (36%), Positives = 16/33 (48%), Gaps = 2/33 (6%)
Query: 22 ALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
K V NE +V+ + T K+G D NNA
Sbjct: 57 HFKIDVTNEEEVKEAVEKTTKKYGRIDILVNNA 89
>3tox_A Short chain dehydrogenase; structural genomics, PSI-biology, NEW
YORK structural genomi research consortium, nysgrc,
oxidoreductase; HET: NAP; 1.93A {Sinorhizobium
meliloti}
Length = 280
Score = 31.4 bits (72), Expect = 0.73
Identities = 11/34 (32%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
AL V +E L+ +FG D NNA
Sbjct: 60 AALAGDVGDEALHEALVELAVRRFGGLDTAFNNA 93
>2gdz_A NAD+-dependent 15-hydroxyprostaglandin dehydrogen; dehydrogenase,
structural genomics, SH dehydrogenase/reductase,
inflammation; HET: NAD; 1.65A {Homo sapiens} SCOP:
c.2.1.2
Length = 267
Score = 31.0 bits (71), Expect = 0.81
Identities = 13/54 (24%), Positives = 20/54 (37%), Gaps = 6/54 (11%)
Query: 5 EENTGNVKRELEKVFD----LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
E K L + F+ L ++ V ++ +R FG D NNA
Sbjct: 41 LEAGVQCKAALHEQFEPQKTLFIQCDVADQQQLRDTFRKVVDHFGRLDILVNNA 94
>2cfc_A 2-(R)-hydroxypropyl-COM dehydrogenase; NAD, oxidoreductase; HET:
NAD KPC; 1.8A {Xanthobacter autotrophicus}
Length = 250
Score = 30.9 bits (71), Expect = 0.85
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
L ++A V +E DV IAA +FG D NNA
Sbjct: 55 LRVRADVADEGDVNAAIAATMEQFGAIDVLVNNA 88
>4dqx_A Probable oxidoreductase protein; structural genomics, PSI-biology,
NEW YORK structural genomi research consortium, nysgrc;
2.00A {Rhizobium etli}
Length = 277
Score = 30.6 bits (70), Expect = 1.1
Identities = 10/34 (29%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
++ V + D ++ TAK+G D NNA
Sbjct: 76 FGVRVDVSSAKDAESMVEKTTAKWGRVDVLVNNA 109
>3gvc_A Oxidoreductase, probable short-chain type dehydrogenase/reductase;
ssgcid, decode, niaid, UWPPG, SBRI, structural genomics;
2.45A {Mycobacterium tuberculosis}
Length = 277
Score = 30.6 bits (70), Expect = 1.2
Identities = 11/34 (32%), Positives = 16/34 (47%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
A + V +E + ++ AC A FG D NA
Sbjct: 78 AACRVDVSDEQQIIAMVDACVAAFGGVDKLVANA 111
>3v8b_A Putative dehydrogenase, possibly 3-oxoacyl-[acyl- protein]
reductase; PSI-biology, structural genomics, protein
structure initiati nysgrc; 2.70A {Sinorhizobium
meliloti}
Length = 283
Score = 30.6 bits (70), Expect = 1.2
Identities = 12/34 (35%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+AL+A V +E +R + KFG D NA
Sbjct: 80 IALEADVSDELQMRNAVRDLVLKFGHLDIVVANA 113
>4dyv_A Short-chain dehydrogenase/reductase SDR; structural genomics,
PSI-biology, NEW YORK structural genomi research
consortium, nysgrc; 1.80A {Xanthobacter autotrophicus}
Length = 272
Score = 30.3 bits (69), Expect = 1.3
Identities = 13/34 (38%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
L + V + VR L A KFG D NNA
Sbjct: 77 LCVPTDVTDPDSVRALFTATVEKFGRVDVLFNNA 110
>3tun_A Methionyl-tRNA synthetase; aminoacyl-tRNA synthetase, AARS, metrs,
parasite, protein-IN complex, translation, nucleotide
binding; HET: C13; 2.55A {Trypanosoma brucei}
Length = 542
Score = 30.7 bits (69), Expect = 1.5
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 144 HVGHLRSTIIGDSLAR 159
H+GH+ ST+I D + R
Sbjct: 25 HIGHVYSTLITDVIGR 40
>4fn4_A Short chain dehydrogenase; NADH-binding, rossmann fold,
oxidoreductase; HET: NAD; 1.75A {Sulfolobus
acidocaldarius}
Length = 254
Score = 30.2 bits (69), Expect = 1.5
Identities = 11/34 (32%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
L +KA V + DV + + D CNNA
Sbjct: 59 LGVKADVSKKKDVEEFVRRTFETYSRIDVLCNNA 92
>2x5f_A Aspartate_tyrosine_phenylalanine pyridoxal-5' phosphate-dependent
aminotransferase...; HET: PLP EPE; 1.80A {Staphylococcus
aureus}
Length = 430
Score = 30.4 bits (69), Expect = 1.6
Identities = 6/53 (11%), Positives = 18/53 (33%)
Query: 227 AQQAVVRLQSGEPKYHEAWAQICEISRKEFDKVYKRLRVDLEEKGESFYNPYI 279
Q AV + ++ + Q + ++ ++ + + D Y+
Sbjct: 315 TQSAVKHVLKNNKQFDKEIEQNIQTLKERYEVTKEVVYADQYHSHWQAYDFNS 367
>1dpg_A G6PD, glucose 6-phosphate dehydrogenase; oxidoreductase, NADP/NAD,
glucose metabolism, oxidoreductase (CHOH(D) - NAD(P));
2.00A {Leuconostoc mesenteroides} SCOP: c.2.1.3 d.81.1.5
PDB: 1e7y_A* 1e7m_A* 1h93_A 1h94_A* 1h9a_A* 1e77_A*
1h9b_A 2dpg_A*
Length = 485
Score = 30.6 bits (70), Expect = 1.7
Identities = 18/100 (18%), Positives = 39/100 (39%), Gaps = 16/100 (16%)
Query: 219 SDPAFKERAQQAVVRLQSGEPKYHEAWAQICEISRKEFDKV--YKRLRVDLEEKGES--- 273
+D FK+ + + + + + EA+ + + Y L+ +EE +
Sbjct: 50 NDDEFKQLVRDCI-KDFTDDQAQAEAFIEHFSYRAHDVTDAASYAVLKEAIEEAADKFDI 108
Query: 274 -----FY---NP-YIPGVIDELSKQGLVEESQGARVIFIE 304
FY P + + L +GL+ ++ R++ IE
Sbjct: 109 DGNRIFYMSVAPRFFGTIAKYLKSEGLLADTGYNRLM-IE 147
>1yde_A Retinal dehydrogenase/reductase 3; oxidoreductase, structural
genomics, structural genomics CON SGC; 2.40A {Homo
sapiens} SCOP: c.2.1.2
Length = 270
Score = 30.2 bits (69), Expect = 1.7
Identities = 11/34 (32%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+ + V E DV+ L++ +FG D NNA
Sbjct: 57 VFILCDVTQEDDVKTLVSETIRRFGRLDCVVNNA 90
>1zem_A Xylitol dehydrogenase; rossmann fold, dinucleotide-binding
domain, oxidoreductase; HET: NAD; 1.90A {Gluconobacter
oxydans} SCOP: c.2.1.2
Length = 262
Score = 29.8 bits (68), Expect = 1.8
Identities = 9/34 (26%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+ V +E V + + FG D+ NNA
Sbjct: 59 RSYVCDVTSEEAVIGTVDSVVRDFGKIDFLFNNA 92
>2dtx_A Glucose 1-dehydrogenase related protein; rossmann fold,
oxidoreductase; HET: BMA; 1.60A {Thermoplasma
acidophilum} PDB: 2dtd_A* 2dte_A* 2zk7_A
Length = 264
Score = 29.8 bits (68), Expect = 2.1
Identities = 8/34 (23%), Positives = 13/34 (38%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
++ V N V+ I ++G NNA
Sbjct: 49 DHIECDVTNPDQVKASIDHIFKEYGSISVLVNNA 82
>3kfl_A Methionyl-tRNA synthetase; parasite, aminoacyl-tRNA synthetase,
tRNA ligase metrs, methionine, translation, ATP-binding;
HET: ME8; 2.00A {Leishmania major}
Length = 564
Score = 30.3 bits (69), Expect = 2.1
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 144 HVGHLRSTIIGDSLAR 159
H+GH+ ST+I D L R
Sbjct: 42 HIGHVYSTLIVDVLGR 57
>3n74_A 3-ketoacyl-(acyl-carrier-protein) reductase; seattle structural
genomics center for infectious disease, S brucellosis;
2.20A {Brucella melitensis biovar abortus}
Length = 261
Score = 29.4 bits (67), Expect = 2.4
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
LA+ A + E DV + A +KFG D NNA
Sbjct: 58 LAVAADISKEADVDAAVEAALSKFGKVDILVNNA 91
>3zv4_A CIS-2,3-dihydrobiphenyl-2,3-DIOL dehydrogenase; oxidoreductase,
short chain dehydrogenase/oxidoreductase, SD comamonas
testosteroni; 1.80A {Pandoraea pnomenusa} PDB: 2y99_A*
3zv3_A 2y93_A 3zv5_A* 3zv6_A* 1bdb_A*
Length = 281
Score = 29.5 bits (67), Expect = 2.9
Identities = 11/38 (28%), Positives = 16/38 (42%), Gaps = 3/38 (7%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNAMGLW 56
+ + V + D + C A FG D NA G+W
Sbjct: 54 VGVVGDVRSLQDQKRAAERCLAAFGKIDTLIPNA-GIW 90
>1spx_A Short-chain reductase family member (5L265); parallel beta-sheet
of seven strands in the order 3214567; 2.10A
{Caenorhabditis elegans} SCOP: c.2.1.2
Length = 278
Score = 29.5 bits (67), Expect = 2.9
Identities = 9/34 (26%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
++ A V + +++ KFG D NNA
Sbjct: 61 NSVVADVTTDAGQDEILSTTLGKFGKLDILVNNA 94
>1qrj_B HTLV-I capsid protein; retrovirus, two-domain protein, alpha
helical protein, heteronuclear spectroscopy; NMR {Human
t-cell lymphotrophic virus TYPE1} SCOP: a.28.3.1
a.73.1.1
Length = 199
Score = 28.9 bits (64), Expect = 3.4
Identities = 6/33 (18%), Positives = 12/33 (36%), Gaps = 5/33 (15%)
Query: 74 QAIMKNLPP-----SEMIESCSVAGPGFVNVVL 101
Q +++ +M+ +C P VL
Sbjct: 167 QKLLQARGHTNSPLGDMLRACQTWTPKDKTKVL 199
>3sp1_A Cysteinyl-tRNA synthetase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid, LYME
disease; HET: AMP; 2.55A {Borrelia burgdorferi}
Length = 501
Score = 29.5 bits (67), Expect = 3.4
Identities = 11/31 (35%), Positives = 17/31 (54%), Gaps = 3/31 (9%)
Query: 144 HVGHLRSTIIGDSLARMLEFSNVEVLRRNHV 174
H+G+ R+ I GD L + L F +V N+
Sbjct: 57 HIGNFRTYIFGDLLIKTLRFLGYKV---NYA 84
>1gee_A Glucose 1-dehydrogenase; short-chain dehydrogenase/reductase,
oxidoreductase; HET: NAD; 1.60A {Bacillus megaterium}
SCOP: c.2.1.2 PDB: 1rwb_A* 1gco_A* 1g6k_A* 3aus_A
3aut_A* 3auu_A*
Length = 261
Score = 29.0 bits (66), Expect = 3.5
Identities = 13/34 (38%), Positives = 19/34 (55%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+A+K V E+DV L+ + +FG D NNA
Sbjct: 60 IAVKGDVTVESDVINLVQSAIKEFGKLDVMINNA 93
>3gem_A Short chain dehydrogenase; structural genomics, APC65077,
oxidoreductase, PSI-2, protein structure initiative;
1.83A {Pseudomonas syringae PV}
Length = 260
Score = 29.1 bits (66), Expect = 3.6
Identities = 7/34 (20%), Positives = 11/34 (32%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+AL ET + I + +NA
Sbjct: 74 VALYGDFSCETGIMAFIDLLKTQTSSLRAVVHNA 107
>2hpu_A NOSL protein; alpha beta topology, metal transport; NMR
{Achromobacter cycloclastes} SCOP: d.357.1.1 PDB: 2hq3_A
Length = 175
Score = 28.5 bits (63), Expect = 3.7
Identities = 12/65 (18%), Positives = 21/65 (32%), Gaps = 6/65 (9%)
Query: 312 IVKSDGG--FNYAST-DLAALWYRLNEEKAEWIIYVTDVGQQLHFDMVFSAAKRAGWLSA 368
I ++ D A + +IYV D+G + W++A
Sbjct: 38 IFLEGSPAPLFFSQVRDAIAYARGPEQIAPILVIYVNDMGAA---GATWDQPGDGNWIAA 94
Query: 369 DDSTY 373
D + Y
Sbjct: 95 DKAFY 99
>2v0c_A Aminoacyl-tRNA synthetase; ligase, nucleotide-binding, protein
biosynthesis; HET: LMS ANZ; 1.85A {Thermus thermophilus}
PDB: 1h3n_A* 1obc_A* 1obh_A* 2bte_A* 2byt_A 2v0g_A*
Length = 878
Score = 29.5 bits (67), Expect = 4.0
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 143 MHVGHLRSTIIGDSLARM 160
+H+GHL++ +GD LAR
Sbjct: 48 LHMGHLKNYTMGDVLARF 65
Score = 28.3 bits (64), Expect = 8.6
Identities = 13/70 (18%), Positives = 19/70 (27%)
Query: 382 GLVLGEDGKRLRTRFSEVVRLVDLLDEAKNRSKAVLIERGKDKEWTEEELEQTAEAVGYG 441
G+VL VVRL + ++ L K E + +
Sbjct: 575 GMVLAWTDFGPVEVEGSVVRLPEPTRIRLEIPESALSLEDVRKMGAELRPHEDGTLHLWK 634
Query: 442 AAKYFDLKNN 451
A K N
Sbjct: 635 PAVMSKSKGN 644
>4dry_A 3-oxoacyl-[acyl-carrier-protein] reductase; structural genomics,
PSI-biology, NEW YORK structural genomi research
consortium, nysgrc; 2.50A {Sinorhizobium meliloti}
Length = 281
Score = 28.7 bits (65), Expect = 4.0
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
A+ V + V L AA A+F D NNA
Sbjct: 86 RAVVCDVGDPDQVAALFAAVRAEFARLDLLVNNA 119
>3ucx_A Short chain dehydrogenase; ssgcid, seattle structural genomics
center for infectious DI dehydrogenase, oxidoreductase;
HET: 1PE; 1.85A {Mycobacterium smegmatis}
Length = 264
Score = 28.7 bits (65), Expect = 4.1
Identities = 8/34 (23%), Positives = 15/34 (44%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
L++ + ++ V L+ +G D NNA
Sbjct: 63 LSVGTDITDDAQVAHLVDETMKAYGRVDVVINNA 96
>2d1y_A Hypothetical protein TT0321; strucrtural genomics, thermus
thermophilus HB8, structural genomics, NPPSFA; HET:
NAD; 1.65A {Thermus thermophilus} SCOP: c.2.1.2
Length = 256
Score = 28.6 bits (65), Expect = 4.2
Identities = 6/34 (17%), Positives = 11/34 (32%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+ + +E + + G D NNA
Sbjct: 52 AFFQVDLEDERERVRFVEEAAYALGRVDVLVNNA 85
>2d5b_A Methionyl-tRNA synthetase; rossmann fold, class 1A AARS, isomerase,
structural genomics, NPPSFA; 1.80A {Thermus
thermophilus} SCOP: a.27.1.1 c.26.1.1 PDB: 1woy_A 1a8h_A
2d54_A
Length = 500
Score = 29.1 bits (66), Expect = 4.3
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 144 HVGHLRSTIIGDSLAR 159
H+GH +T++ D LAR
Sbjct: 19 HLGHAYTTVVADFLAR 34
>3uve_A Carveol dehydrogenase ((+)-trans-carveol dehydrog; ssgcid,
structural genomics, seattle structural genomics CEN
infectious disease; HET: NAD PG4; 1.55A {Mycobacterium
avium} PDB: 3uwr_A*
Length = 286
Score = 28.7 bits (65), Expect = 4.4
Identities = 5/34 (14%), Positives = 13/34 (38%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+ + V + ++ + + + G D NA
Sbjct: 79 VTAEVDVRDYDALKAAVDSGVEQLGRLDIIVANA 112
>2x1l_A Methionyl-tRNA synthetase; nucleotide-binding, protein
biosynthesis, ligase, aminoacyl- synthetase; HET: ADN
CXS; 2.30A {Mycobacterium smegmatis} PDB: 2x1m_A*
Length = 524
Score = 29.1 bits (66), Expect = 4.5
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 144 HVGHLRSTIIGDSLAR 159
H+GH I D++AR
Sbjct: 28 HIGHAYEYIATDAIAR 43
>2csx_A Methionyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiative, RSGI, structural
genomics, ligase/RNA complex; 2.70A {Aquifex aeolicus}
PDB: 2ct8_A*
Length = 497
Score = 29.1 bits (66), Expect = 4.6
Identities = 8/16 (50%), Positives = 12/16 (75%)
Query: 144 HVGHLRSTIIGDSLAR 159
H+GH +TI D++AR
Sbjct: 21 HLGHAYTTIAADTIAR 36
>2vqx_A Metalloproteinase; thermolysin-like structure, zinc, protease,
hydrolase, metalloprotease; 1.82A {Serratia
proteamaculans}
Length = 341
Score = 29.0 bits (64), Expect = 5.0
Identities = 13/62 (20%), Positives = 19/62 (30%), Gaps = 1/62 (1%)
Query: 317 GGFNYASTDLAALWYRLNEEKAEWIIYVTDVGQQLHFDMVFSAAKRAGWLSADDSTYPKA 376
G N A A EKA +I Y T + L D F+ + + +
Sbjct: 268 GIPNRAFYLAATALGGYAWEKAGYIWYDTLCDKALPQDADFATF-ARTTVKHAEQRFDSK 326
Query: 377 SH 378
Sbjct: 327 VA 328
>1li5_A Cysrs, cysteinyl-tRNA synthetase, transfer RNA-Cys; cysteine,
E.coli, ligase; 2.30A {Escherichia coli} SCOP: a.27.1.1
c.26.1.1 PDB: 1li7_A 1u0b_B
Length = 461
Score = 28.7 bits (65), Expect = 5.1
Identities = 9/25 (36%), Positives = 15/25 (60%)
Query: 144 HVGHLRSTIIGDSLARMLEFSNVEV 168
H+GH R+ + D +AR L F ++
Sbjct: 37 HIGHGRTFVAFDVVARYLRFLGYKL 61
>4dlp_A Aminoacyl-tRNA synthetase, class I:aminoacyl-tRNA synthetase, class
IA:methionyl-tRNA...; structural genomics; 2.65A
{Brucella melitensis biovar abortus 230ORGANISM_TAXID}
Length = 536
Score = 28.8 bits (65), Expect = 5.2
Identities = 7/16 (43%), Positives = 10/16 (62%)
Query: 144 HVGHLRSTIIGDSLAR 159
H+GH I D++AR
Sbjct: 41 HIGHAYELIATDAMAR 56
>4arc_A Leucine--tRNA ligase; ligase-RNA complex, nucleotide-binding,
protein biosynthesis I aminoacyl-tRNA synthetase,
ATP-binding; 2.00A {Escherichia coli} PDB: 4aq7_A
4ari_A* 4as1_A*
Length = 880
Score = 29.1 bits (66), Expect = 5.2
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 143 MHVGHLRSTIIGDSLARM 160
+H+GH+R+ IGD +AR
Sbjct: 68 LHMGHVRNYTIGDVIARY 85
>2bgk_A Rhizome secoisolariciresinol dehydrogenase; oxidoreductase; 1.6A
{Podophyllum peltatum} SCOP: c.2.1.2 PDB: 2bgl_A*
2bgm_A*
Length = 278
Score = 28.7 bits (65), Expect = 5.4
Identities = 10/28 (35%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 27 VPNETDVRPLIAACTAKFG--DYQCNNA 52
V + DVR L+ AK G D N
Sbjct: 73 VTKDEDVRNLVDTTIAKHGKLDIMFGNV 100
>3uxy_A Short-chain dehydrogenase/reductase SDR; structural genomics,
PSI-biology, NEW YORK structural genomi research
consortium, nysgrc; HET: NAD; 2.10A {Rhodobacter
sphaeroides}
Length = 266
Score = 28.3 bits (64), Expect = 5.4
Identities = 10/34 (29%), Positives = 11/34 (32%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
L L + L A A G D NNA
Sbjct: 69 LHLPGDLREAAYADGLPGAVAAGLGRLDIVVNNA 102
>1wkb_A Leucyl-tRNA synthetase; leucine, aminoacyl-tRNA, editing, amino
acid, aminoacylation, trnaLeu, structural genomics;
2.05A {Pyrococcus horikoshii}
Length = 810
Score = 28.8 bits (64), Expect = 5.4
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 143 MHVGHLRSTIIGDSLAR 159
+HVGH R+ I D +AR
Sbjct: 49 LHVGHARTYTIPDVIAR 65
>4fgs_A Probable dehydrogenase protein; PSI-biology, nysgrc, structural
genomics, NEW YORK structura genomics research
consortium, three layer; 1.76A {Rhizobium etli}
Length = 273
Score = 28.3 bits (64), Expect = 5.6
Identities = 8/34 (23%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+ ++A N ++ L A+ G D NA
Sbjct: 78 VGIQADSANLAELDRLYEKVKAEAGRIDVLFVNA 111
>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural
genomics, structural genomics consortium, SGC,
hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*
Length = 230
Score = 28.4 bits (64), Expect = 5.9
Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 6/50 (12%)
Query: 480 RICSIIRKSGKDIEELKKTGSLVLDHADERALGLHLLHFSEVIEEALTNL 529
RI +I + ++ +LD AD+ L F E I ++L
Sbjct: 152 RIKQLIELDYLNPGSIR---LFILDEADKL---LEEGSFQEQINWIYSSL 195
>3pei_A Cytosol aminopeptidase; structural genomics, center for structural
genomics of infec diseases, csgid, alpha-beta sandwich;
HET: MSE; 2.70A {Francisella tularensis subsp}
Length = 486
Score = 28.5 bits (64), Expect = 5.9
Identities = 20/125 (16%), Positives = 38/125 (30%), Gaps = 12/125 (9%)
Query: 416 VLIERGKDKEWTEEELEQTAEAVGYGAAKYFDLKNNRLTNYTFSFDQMLNDKGNTAVYLL 475
+L+ G +++ E ++ AA+ LK + + D + L
Sbjct: 63 ILLGLGLRQDFIASEYDKIIAK----AAEQ--LKKLAIKEISVDIDYAFENDNVKQFTLD 116
Query: 476 YAHARICSIIR----KSGKDIEELKKTGSLVLDHADERALGLHLLHFSEVIEEA--LTNL 529
A I K+ K+ L++ + D + A L NL
Sbjct: 117 TVRALISETYVFDQLKTEKENYSLEQIELVYSGDQDIEDSAKIGSAIACGQNYAKDLQNL 176
Query: 530 LPNVV 534
N+
Sbjct: 177 PANIC 181
>1zk4_A R-specific alcohol dehydrogenase; short chain
reductases/dehydrogenases, magnesium dependence,
oxidoreductase; HET: NAP; 1.00A {Lactobacillus brevis}
SCOP: c.2.1.2 PDB: 1nxq_A* 1zjy_A* 1zjz_A* 1zk0_A*
1zk1_A* 1zk2_A 1zk3_A
Length = 251
Score = 28.2 bits (64), Expect = 5.9
Identities = 8/34 (23%), Positives = 10/34 (29%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+ +E L A FG NNA
Sbjct: 57 QFFQHDSSDEDGWTKLFDATEKAFGPVSTLVNNA 90
>3c8z_A Cysteinyl-tRNA synthetase; cysteine ligase, rossmann fold, Cys-SA
inhibitor, zinc binding, ATP-binding, aminoacyl-tRNA
synthetase; HET: 5CA 1PE EPE; 1.60A {Mycobacterium
smegmatis}
Length = 414
Score = 28.7 bits (65), Expect = 6.0
Identities = 6/25 (24%), Positives = 12/25 (48%)
Query: 144 HVGHLRSTIIGDSLARMLEFSNVEV 168
H+GH + + D + R+ + V
Sbjct: 54 HLGHAATYLTFDLVHRLWLDAGHTV 78
>1jwq_A N-acetylmuramoyl-L-alanine amidase CWLV; open alpha-beta-alpha,
hydrolase; 1.80A {Paenibacillus polymyxa} SCOP: c.56.5.6
Length = 179
Score = 27.9 bits (63), Expect = 6.4
Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 7/42 (16%)
Query: 415 AVLIERG-----KDKEW--TEEELEQTAEAVGYGAAKYFDLK 449
AVL+E G K++ E+ + A+ + G +Y D+K
Sbjct: 138 AVLLEVGYLSNAKEEATLFDEDFQNRVAQGIADGITEYLDVK 179
>1hdc_A 3-alpha, 20 beta-hydroxysteroid dehydrogenase; oxidoreductase;
HET: CBO; 2.20A {Streptomyces exfoliatus} SCOP: c.2.1.2
PDB: 2hsd_A*
Length = 254
Score = 28.2 bits (64), Expect = 6.4
Identities = 10/34 (29%), Positives = 14/34 (41%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
V E D + ++A +FG D NNA
Sbjct: 54 RYQHLDVTIEEDWQRVVAYAREEFGSVDGLVNNA 87
>3tqo_A Cysteinyl-tRNA synthetase; protein synthesis, ligase; 2.30A
{Coxiella burnetii}
Length = 462
Score = 28.7 bits (65), Expect = 6.6
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 144 HVGHLRSTIIGDSLARMLEFSNVEV 168
H+GH RS II D + R L EV
Sbjct: 40 HIGHGRSWIIFDMVVRYLRMRGYEV 64
>1ja9_A 4HNR, 1,3,6,8-tetrahydroxynaphthalene reductase;
protein-NADPH-active site inhibitor complex,
oxidoreductase, chain dehydrogenase; HET: NDP PYQ; 1.50A
{Magnaporthe grisea} SCOP: c.2.1.2
Length = 274
Score = 27.9 bits (63), Expect = 7.6
Identities = 8/34 (23%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+A++A + ++V L + FG D+ +N+
Sbjct: 74 VAIQADISKPSEVVALFDKAVSHFGGLDFVMSNS 107
>3e03_A Short chain dehydrogenase; structural genomics, PSI-2, protein
structure initiative, NEW YORK structural genomix
research consortium; 1.69A {Xanthomonas campestris PV}
Length = 274
Score = 28.0 bits (63), Expect = 8.1
Identities = 15/34 (44%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
LALK + E VR +AA FG D NNA
Sbjct: 65 LALKCDIREEDQVRAAVAATVDTFGGIDILVNNA 98
>3svt_A Short-chain type dehydrogenase/reductase; ssgcid, seattle
structural genomics center for infectious DI
oxidoreductase; 2.00A {Mycobacterium ulcerans}
Length = 281
Score = 27.9 bits (63), Expect = 8.6
Identities = 7/34 (20%), Positives = 11/34 (32%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+ NE + + A TA G + A
Sbjct: 66 RYEPTDITNEDETARAVDAVTAWHGRLHGVVHCA 99
>1wz2_A Leucyl-tRNA synthetase; ligase, riken structural
genomics/proteomics initiativ structural genomics,
ligase-RNA complex; 3.21A {Pyrococcus horikoshii}
Length = 967
Score = 28.4 bits (63), Expect = 9.1
Identities = 9/17 (52%), Positives = 12/17 (70%)
Query: 143 MHVGHLRSTIIGDSLAR 159
+HVGH R+ I D +AR
Sbjct: 49 LHVGHARTYTIPDVIAR 65
>1bs0_A Protein (8-amino-7-oxonanoate synthase); PLP-dependent acyl-COA
synthase, biotin biosynthesis, 8-AMIN oxonanoate
synthase; 1.65A {Escherichia coli} SCOP: c.67.1.4 PDB:
2g6w_A* 1dje_A* 1dj9_A*
Length = 384
Score = 27.9 bits (63), Expect = 9.1
Identities = 21/84 (25%), Positives = 30/84 (35%), Gaps = 30/84 (35%)
Query: 321 YASTDLAALWYRLNEEKAEWIIYVTDVGQQLHFDMVFS-------------AAKRAG-WL 366
+A D+ L L + VT+ G VFS ++ WL
Sbjct: 150 FAHNDVTHLARLLASPCPGQQMVVTE-G-------VFSMDGDSAPLAEIQQVTQQHNGWL 201
Query: 367 SADDSTYPKASHVGFGLVLGEDGK 390
DD +H G G V+GE G+
Sbjct: 202 MVDD------AH-GTG-VIGEQGR 217
>1nff_A Putative oxidoreductase RV2002; directed evolution, GFP, SDR,
hydroxysteroid dehydrogenase, structural genomics, PSI;
HET: NAD; 1.80A {Mycobacterium tuberculosis} SCOP:
c.2.1.2 PDB: 1nfq_A* 1nfr_A*
Length = 260
Score = 27.5 bits (62), Expect = 9.7
Identities = 6/34 (17%), Positives = 9/34 (26%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+ V + + FG NNA
Sbjct: 56 RYVHLDVTQPAQWKAAVDTAVTAFGGLHVLVNNA 89
>1hxh_A 3BETA/17BETA-hydroxysteroid dehydrogenase; alpha-beta, rossmann
fold, short-chain dehydrogenase, oxidoreductase; 1.22A
{Comamonas testosteroni} SCOP: c.2.1.2
Length = 253
Score = 27.4 bits (62), Expect = 9.8
Identities = 9/34 (26%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 21 LALKATVPNETDVRPLIAACTAKFG--DYQCNNA 52
+ ++ V +E D ++AA + G + NNA
Sbjct: 55 MFVRHDVSSEADWTLVMAAVQRRLGTLNVLVNNA 88
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.318 0.135 0.395
Gapped
Lambda K H
0.267 0.0837 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 8,837,454
Number of extensions: 557745
Number of successful extensions: 1602
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1557
Number of HSP's successfully gapped: 96
Length of query: 555
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 457
Effective length of database: 3,965,535
Effective search space: 1812249495
Effective search space used: 1812249495
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 60 (26.7 bits)