RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013856
(435 letters)
>1eov_A ASPRS, aspartyl-tRNA synthetase; aminoacyl tRNA synthetase, tRNA
ligase, APO-enzyme, OB-fold,; 2.30A {Saccharomyces
cerevisiae} SCOP: b.40.4.1 d.104.1.1 PDB: 1asy_A*
1asz_A*
Length = 487
Score = 427 bits (1100), Expect = e-147
Identities = 178/381 (46%), Positives = 239/381 (62%), Gaps = 21/381 (5%)
Query: 61 ANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGALN-GSLKDQEVLIRGRVHTTRPV 119
+NYG +PL + + + G++ + L+ D+EVL R RVH TR
Sbjct: 2 KDNYGKLPLIQSRDSDRT----------GQKRVKFVDLDEAKDSDKEVLFRARVHNTRQQ 51
Query: 120 GNKLAFVVVRERVSTVQCLATVK-PDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKG 178
G LAF+ +R++ S +Q L ++SK MV++ SL+ ESIV V G+V D IK
Sbjct: 52 GATLAFLTLRQQASLIQGLVKANKEGTISKNMVKWAGSLNLESIVLVRGIVKKVDEPIKS 111
Query: 179 ATQQ-VEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRV 236
AT Q +E+ I K+Y +S + PI +EDASRSEAE E A P VN DTRL+ RV
Sbjct: 112 ATVQNLEIHITKIYTISETPEALPILLEDASRSEAEAEAAGL-----PVVNLDTRLDYRV 166
Query: 237 IDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSA 296
ID+RT+ NQ IFRIQ+ V +FR++L ++ F E+HTPKL+ SEGGS+VF + Y A
Sbjct: 167 IDLRTVTNQAIFRIQAGVCELFREYLATKKFTEVHTPKLLGAPSEGGSSVFEVTYFKGKA 226
Query: 297 CLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMD 356
LAQSPQ +KQ I DF RV+E GPVFRAE+S THRH+ EFTGLD+EM ++HY EV+D
Sbjct: 227 YLAQSPQFNKQQLIVADFERVYEIGPVFRAENSNTHRHMTEFTGLDMEMAFEEHYHEVLD 286
Query: 357 IVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKY--KPKTLRLTFEEGVQMLKDAGVEI 414
+ LFV IF L E+E V KQYP E K K +RLT++EG++ML+ AG EI
Sbjct: 287 TLSELFVFIFSELPKRFAHEIELVRKQYPVEEFKLPKDGKMVRLTYKEGIEMLRAAGKEI 346
Query: 415 DPLGDLNTESERKLGQLVLEK 435
DL+TE+E+ LG+LV +K
Sbjct: 347 GDFEDLSTENEKFLGKLVRDK 367
>3i7f_A Aspartyl-tRNA synthetase; tRNA ligase, APO, ATP-binding,
aminoacyl-tRNA synthetase, LI nucleotide-binding,
protein biosynthesis; 2.80A {Entamoeba histolytica}
Length = 548
Score = 413 bits (1062), Expect = e-141
Identities = 166/444 (37%), Positives = 240/444 (54%), Gaps = 57/444 (12%)
Query: 32 KKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGRE 91
A + +K E N+ +P+ + Q +G +
Sbjct: 4 SMAATQEKKPQLPPVVLLK----TPELVSGENFKVMPMHQSQP----------CYKTGLK 49
Query: 92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV 151
+TE+ L ++ ++ V IR RV R G + F+ +R+ + T Q L +K +++SKE V
Sbjct: 50 YTEIEELVPAMAEKTVTIRARVQAVRGKG-NMVFLFLRKGIYTCQALV-MKSETISKEFV 107
Query: 152 RFVRSLSNESIVDVIGVVSVPDVEIKGATQQ-VEVQIKKLYCVSRAAKT-PITIEDASRS 209
+F + +S ESI D+ G+V + I+ ATQQ VE+ + + VS A P+ IED +
Sbjct: 108 QFCQKISAESICDITGIVKAVEKPIEKATQQDVEIHVTSIAVVSLAEYPLPMQIEDLTFP 167
Query: 210 EAEIEKAS--------------------------------------KEGVQLPRVNQDTR 231
+ +K + +V+QDTR
Sbjct: 168 SSVFKKQEEDIAKVDEKIAKFLKDNEGKDLTKRPLKDEYAKLLKEKASAQKYVKVSQDTR 227
Query: 232 LNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDY 291
L+NR++D+RT+ N IFRIQS +FR+FL S+ FVEIHTPKLI SSEGGS +F + Y
Sbjct: 228 LDNRMLDLRTVTNIAIFRIQSACCGLFREFLTSQKFVEIHTPKLIGCSSEGGSNIFEVKY 287
Query: 292 KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY 351
+ A LAQSPQL+KQM+I GDF +VFE GPVFRAE+S T RHL EF GLD+EMEI ++Y
Sbjct: 288 FDRKAYLAQSPQLYKQMAIMGDFRKVFEVGPVFRAENSNTRRHLTEFEGLDIEMEIVENY 347
Query: 352 SEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAG 411
E +D+++ LF IFD + EL+ + KQYPFE L Y+P LRLT++E ++ML+ +G
Sbjct: 348 HECIDVMEKLFTFIFDEIPKRFPDELKVIRKQYPFEDLIYRP-FLRLTYKEAIEMLRASG 406
Query: 412 VEIDPLGDLNTESERKLGQLVLEK 435
I D T E KLG+L+ K
Sbjct: 407 ETIGDYDDFTTPQEVKLGELIKAK 430
>3nem_A Aspartyl-tRNA synthetase; rossmann fold, OB fold, ligase; HET: AMO
ATP; 1.89A {Thermococcus kodakarensis} PDB: 3nel_A*
3nen_A 1b8a_A*
Length = 438
Score = 394 bits (1015), Expect = e-135
Identities = 104/347 (29%), Positives = 167/347 (48%), Gaps = 29/347 (8%)
Query: 90 REWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE 149
+ L Q+V + G V + +G + F+ +R+R VQ T V E
Sbjct: 2 YRTHYSSEITEELNGQKVKVAGWVWEVKDLG-GIKFLWIRDRDGIVQI--TAPKKKVDPE 58
Query: 150 MVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASR 208
+ + + L +E +V V GVV A E+ +K+ ++RA P+ +
Sbjct: 59 LFKLIPKLRSEDVVAVEGVV----NFTPKAKLGFEILPEKIVVLNRAETPLPLDPTGKVK 114
Query: 209 SEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFV 268
DTRL+NR +D+R IF+I+S V R F F+
Sbjct: 115 -----------------AELDTRLDNRFMDLRRPEVMAIFKIRSSVFKAVRDFFHENGFI 157
Query: 269 EIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAED 328
EIHTPK+IA ++EGG+ +F + Y + A LAQSPQL+KQ+ + RV+E P+FRAE+
Sbjct: 158 EIHTPKIIATATEGGTELFPMKYFEEDAFLAQSPQLYKQIMMASGLDRVYEIAPIFRAEE 217
Query: 329 SYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEP 388
T RHL E +D EM + EVM ++ L + + KEL+ + +
Sbjct: 218 HNTTRHLNEAWSIDSEMAFIEDEEEVMSFLERLVAHAINYVREHNAKELDILNFELEEPK 277
Query: 389 LKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
L + R+++++ +++L D G EI D++TE ER LG+ ++E
Sbjct: 278 LPFP----RVSYDKALEILGDLGKEIPWGEDIDTEGERLLGKYMMEN 320
>1wyd_A Hypothetical aspartyl-tRNA synthetase; archaea, LIGA; HET: EPE;
2.30A {Sulfolobus tokodaii}
Length = 429
Score = 356 bits (915), Expect = e-120
Identities = 99/342 (28%), Positives = 169/342 (49%), Gaps = 34/342 (9%)
Query: 90 REWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE 149
+ + +EV+ G VH R +G F+++R++ Q + +
Sbjct: 2 YRSHFIADVTPEYDGKEVIWAGWVHLLRDLG-GKKFIILRDKTGLGQVVV-----DKNSS 55
Query: 150 MVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASR 208
+ L+ ES++ V G+V K A + +E+ +++ +S+A P+ + +
Sbjct: 56 AFGISQELTQESVIQVRGIV----KADKRAPRGIELHAEEITLLSKAKAPLPLDVSGKVK 111
Query: 209 SEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFV 268
+ + DTRL RV+D+R Q + +IQS FR+ L E F+
Sbjct: 112 A-----------------DIDTRLRERVLDLRRQEMQAVIKIQSLALKAFRETLYKEGFI 154
Query: 269 EIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAED 328
EI TPK+IA ++EGG+ +F + Y G+ A LAQSPQL+K++ + G RVFE P +RAE+
Sbjct: 155 EIFTPKIIASATEGGAQLFPVIYFGKEAFLAQSPQLYKEL-MAGVVERVFEVAPAWRAEE 213
Query: 329 SYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEP 388
S T HL EF +DVEM Y++VM +++ + I ++ K+EL+ + + P
Sbjct: 214 SDTPFHLAEFISMDVEMAF-ADYNDVMQLLEKILHNIVKTIKEEGKEELKILNYEPPEVK 272
Query: 389 LKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQ 430
+ K RL + E +++L+ G I D+ T R L +
Sbjct: 273 IPIK----RLKYTEAIEILRSKGYNIKFGDDIGTPELRILNE 310
>1n9w_A Aspartyl-tRNA synthetase 2; biosynthetic protein; 2.30A {Thermus
thermophilus} SCOP: b.40.4.1 d.104.1.1 PDB: 3kfu_A*
Length = 422
Score = 347 bits (893), Expect = e-117
Identities = 100/333 (30%), Positives = 161/333 (48%), Gaps = 40/333 (12%)
Query: 104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIV 163
QEV + G +H R +G ++ F+++R+R VQ + + ES +
Sbjct: 13 GQEVELLGFLHWRRDLG-RIQFLLLRDRSGVVQVVTGGL------------KLPLPESAL 59
Query: 164 DVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKT-PITIEDASRSEAEIEKASKEGVQ 222
V G+V VE A +EVQ K++ +S A + P+ I
Sbjct: 60 RVRGLV----VENAKAPGGLEVQAKEVEVLSPALEPTPVEIPKEEW-------------- 101
Query: 223 LPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282
R N DT L R + +R + ++Q+ + FR++L ++F EI TPK++ +EG
Sbjct: 102 --RANPDTLLEYRYVTLRGEKARAPLKVQAALVRGFRRYLDRQDFTEIFTPKVVRAGAEG 159
Query: 283 GSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLD 342
GS +F +DY + A LAQSPQL+KQ+ + F RV+E PV+R E+ +T RHL E+ LD
Sbjct: 160 GSGLFGVDYFEKRAYLAQSPQLYKQIMVGV-FERVYEVAPVWRMEEHHTSRHLNEYLSLD 218
Query: 343 VEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEE 402
VEM ++M + + L + + N E+ + +P P RLT E
Sbjct: 219 VEMGFIADEEDLMRLEEALLAEMLEEALNTAGDEIRLLGATWPSFPQDIP----RLTHAE 274
Query: 403 GVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
++LK+ + DL+ E+ER LG+ E+
Sbjct: 275 AKRILKE-ELGYPVGQDLSEEAERLLGEYAKER 306
>1x54_A Asparaginyl-tRNA synthetase; aminoacyl-tRNA synthetase, riken
structural genomics/proteom initiative, RSGI, structural
genomics, ligase; HET: 4AD; 1.45A {Pyrococcus
horikoshii} PDB: 1x55_A* 1x56_A
Length = 434
Score = 229 bits (586), Expect = 6e-71
Identities = 89/341 (26%), Positives = 155/341 (45%), Gaps = 30/341 (8%)
Query: 91 EWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEM 150
E + L ++V + G V+T VG K F+ +R+ VQ V + V +E
Sbjct: 3 EKVYCQEVKPELDGKKVRLAGWVYTNMRVG-KKIFLWIRDSTGIVQA--VVAKNVVGEET 59
Query: 151 VRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSE 210
+ L ES V V G+V + A EV ++KL + ++ PI
Sbjct: 60 FEKAKKLGRESSVIVEGIV----KADERAPGGAEVHVEKLEVIQAVSEFPIPE------- 108
Query: 211 AEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEI 270
+ + + L+ R + IRT I +++ + R++LL + + E+
Sbjct: 109 -----------NPEQASPELLLDYRHLHIRTPKASAIMKVKETLIMAAREWLLKDGWHEV 157
Query: 271 HTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSY 330
P L+ G+ EGG+ +F+L Y + A L+QS QL+ + +I G +V+ P FRAE S
Sbjct: 158 FPPILVTGAVEGGATLFKLKYFDKYAYLSQSAQLYLEAAIFG-LEKVWSLTPSFRAEKSR 216
Query: 331 THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYP-FEPL 389
T RHL EF L++E ++M + + L + + KKE+E +
Sbjct: 217 TRRHLTEFWHLELEAAW-MDLWDIMKVEEELVSYMVQRTLELRKKEIEMFRDDLTTLKNT 275
Query: 390 KYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQ 430
+P R++++E + +L+ GV ++ DL + ER L +
Sbjct: 276 --EPPFPRISYDEAIDILQSKGVNVEWGDDLGADEERVLTE 314
>2xgt_A Asparaginyl-tRNA synthetase, cytoplasmic; ligase, ATP-binding,
protein biosynthesis; HET: NSS; 1.90A {Brugia malayi}
PDB: 2xti_A*
Length = 435
Score = 203 bits (519), Expect = 5e-61
Identities = 77/341 (22%), Positives = 137/341 (40%), Gaps = 47/341 (13%)
Query: 103 KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESI 162
+++ V I+G +H R G L F ++R+ +Q + +++ E
Sbjct: 10 RNERVCIKGWIHRMRRQGKSLMFFILRDGTGFLQV--LLMDKLCQTYDAL---TVNTECT 64
Query: 163 VDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQ 222
V++ G + E K A E+ + A I V
Sbjct: 65 VEIYGAI-KEVPEGKEAPNGHELIADFWKIIGNAPPGGIDN-----------------VL 106
Query: 223 LPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282
+ D L+NR + IR + R+++ R+ + +VE+ P L+ EG
Sbjct: 107 NEEASVDKMLDNRHLVIRGENAAALLRLRAAATRAMREHFYNAGYVEVAPPTLVQTQVEG 166
Query: 283 GSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLD 342
GS +F LDY G+ + L QS QL+ + I G VF +RAE S T RHL E+ ++
Sbjct: 167 GSTLFNLDYFGEQSFLTQSSQLYLETCIPT-LGDVFCIAQSYRAEKSRTRRHLAEYAHVE 225
Query: 343 VEMEIKKHYSEVMDIVDCLFVTIFDSL--NNVCKKELEAVAKQY-----PFEPLKYKPKT 395
E ++M+ ++ L D L + KK LE + ++ PF
Sbjct: 226 AECPFITL-DDLMEKIEELVCDTVDRLLADEEAKKLLEHINPKFQPPERPFL-------- 276
Query: 396 LRLTFEEGVQMLKDAGVEIDPLG------DLNTESERKLGQ 430
R+ +++ ++ L++ VE + D+ +ER +
Sbjct: 277 -RMEYKDAIKWLQEHNVENEFGNTFTYGEDIAEAAERFMTD 316
>3m4p_A Ehasnrs, asparaginyl-tRNA synthetase, putative; aminoacyl-tRNA
synthetase, tRNA ligase, AARS, translation, ATP-binding,
nucleotide-binding; HET: 4AD; 2.83A {Entamoeba
histolytica} PDB: 3m4q_A
Length = 456
Score = 204 bits (520), Expect = 6e-61
Identities = 73/344 (21%), Positives = 145/344 (42%), Gaps = 45/344 (13%)
Query: 100 GSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSN 159
L+ + V +G + R L FV +R+ QC + + + V+ L+
Sbjct: 26 AGLEGKLVTFKGWAYHIRKARKTLIFVELRDGSGYCQC--VIFGKELCEP--EKVKLLTR 81
Query: 160 ESIVDVIG-VVSVPD---VEIKGATQQVEVQIKKLYCVSRAA--KTPITIEDASRSEAEI 213
E +++ G + + +E+Q+ + + + I +D+S
Sbjct: 82 ECSLEITGRLNAYAGKNHPPEIADILNLEMQVTEWKVIGESPIDLENIINKDSSI----- 136
Query: 214 EKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP 273
++ NR I IR+ Q + +++S++ FR++ +F EI P
Sbjct: 137 ---------------PQKMQNRHIVIRSEHTQQVLQLRSEIQWYFRKYYHDNHFTEIQPP 181
Query: 274 KLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHR 333
++ EGGS +F+L Y + A L QS QL+ + I G+ F +RAE S T R
Sbjct: 182 TIVKTQCEGGSTLFKLQYFNEPAYLTQSSQLYLESVIAS-LGKSFCMLSSYRAEQSRTVR 240
Query: 334 HLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKP 393
HL E+ L+ E+ + ++++ ++ L T+ D++ V ++ P P
Sbjct: 241 HLAEYLHLEAELPF-ISFEDLLNHLEDLVCTVIDNVMAVHGDKIRK------MNPHLKLP 293
Query: 394 KT--LRLTFEEGVQMLKDAGV--EIDPLG---DLNTESERKLGQ 430
R+T+ + ++ D G+ + P D++ + ER++
Sbjct: 294 TRPFKRMTYADAIKYCNDHGILNKDKPFEYGEDISEKPERQMTD 337
>1nnh_A Asparaginyl-tRNA synthetase-related peptide; structural genomics,
PSI, protein structure initiative, southeast COLL for
structural genomics; 1.65A {Pyrococcus furiosus} SCOP:
d.104.1.1 PDB: 3p8t_A 3p8v_A 3p8y_A 3reu_A* 3rex_A*
3rl6_A*
Length = 294
Score = 154 bits (392), Expect = 5e-44
Identities = 38/202 (18%), Positives = 66/202 (32%), Gaps = 31/202 (15%)
Query: 235 RVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTP-------KLIAGSSEGGSAVF 287
++I + IQ+++ F + E F + L + G
Sbjct: 2 NAVEIISREISPTLDIQTKILEYMTDFFVKEGFKWLLPVIISPITDPLWPDPAGEGMEPA 61
Query: 288 RLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAED--SYTHRHLCEFTGLDVEM 345
++ G L S LHKQ++I ++F P R E RH EFT LD E+
Sbjct: 62 EVEIYGVKMRLTHSMILHKQLAIAMGLKKIFVLSPNIRLESRQKDDGRHAYEFTQLDFEV 121
Query: 346 EIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQ 405
E + ++M +++ L +F +E FE + E ++
Sbjct: 122 E-RAKMEDIMRLIERLVYGLFRKAEEWTGREFPKTK---RFE---------VFEYSEVLE 168
Query: 406 MLKDAGVEIDPLGDLNTESERK 427
D E +
Sbjct: 169 EFGS---------DEKASQEME 181
>1l0w_A Aspartyl-tRNA synthetase; space-grown crystal, dimeric enzyme,
flexible domains, ligase; 2.01A {Thermus thermophilus}
SCOP: b.40.4.1 d.74.4.1 d.104.1.1 PDB: 1efw_A* 1g51_A
Length = 580
Score = 116 bits (293), Expect = 2e-28
Identities = 91/320 (28%), Positives = 138/320 (43%), Gaps = 59/320 (18%)
Query: 96 GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
G+L + +EV++ G V+ R +G L F+ +R+R VQ P S + VR
Sbjct: 8 GSLRETHVGEEVVLEGWVNRRRDLGG-LIFLDLRDREGLVQL--VAHPASPAYATAERVR 64
Query: 156 SLSNESIVDVIGVVSV-PDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIE 214
E +V G+V + P+ + AT +VEV++ L ++ A P ++ R E E E
Sbjct: 65 ---PEWVVRAKGLVRLRPEPNPRLATGRVEVELSALEVLAEAKTPPFPVDAGWRGEEEKE 121
Query: 215 KASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPK 274
+++ RL R +D+R Q R++ +V FL E FV++ TP
Sbjct: 122 -----------ASEELRLKYRYLDLRRRRMQENLRLRHRVIKAIWDFLDREGFVQVETPF 170
Query: 275 LIAGSSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAE 327
L + EG R D+ G L QSPQL KQM + R F+ FR E
Sbjct: 171 LTKSTPEGA----R-DFLVPYRHEPGLFYALPQSPQLFKQMLMVAGLDRYFQIARCFRDE 225
Query: 328 DSYTHRHLCEFTGLDVEMEIKKHYS-----EVMDIVDCLFVTIFDSLNNVCKKELEAVAK 382
D R +FT LD+EM S +V+++ + L +F V EL
Sbjct: 226 DLRADRQP-DFTQLDLEM------SFVEVEDVLELNERLMAHVFREALGV---ELPL--- 272
Query: 383 QYPFEPLKYKPKTLRLTFEE 402
PF RL++EE
Sbjct: 273 --PFP---------RLSYEE 281
>1c0a_A Aspartyl tRNA synthetase; protein-RNA complex, ligase/RNA complex;
HET: 4SU H2U QUO G7M 5MU PSU AMP AMO; 2.40A {Escherichia
coli} SCOP: b.40.4.1 d.74.4.1 d.104.1.1 PDB: 1il2_A*
1eqr_A*
Length = 585
Score = 103 bits (259), Expect = 7e-24
Identities = 81/322 (25%), Positives = 131/322 (40%), Gaps = 69/322 (21%)
Query: 96 GALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155
G L S Q+V + G V+ R +G+ L F+ +R+R VQ PD + ++
Sbjct: 7 GQLRLSHVGQQVTLCGWVNRRRDLGS-LIFIDMRDREGIVQV--FFDPDR--ADALKLAS 61
Query: 156 SLSNESIVDVIGVVSV-PDVEI--KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAE 212
L NE + V G V + I AT ++EV L ++RA P+
Sbjct: 62 ELRNEFCIQVTGTVRARDEKNINRDMATGEIEVLASSLTIINRADVLPLDSNH------- 114
Query: 213 IEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHT 272
++ RL R +D+R + ++++ ++ R+F+ F++I T
Sbjct: 115 ------------VNTEEARLKYRYLDLRRPEMAQRLKTRAKITSLVRRFMDDHGFLDIET 162
Query: 273 PKLIAGSSEGGSAVFRLDY-------KGQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325
P L + EG R DY KG+ L QSPQL KQ+ + F R ++ FR
Sbjct: 163 PMLTKATPEGA----R-DYLVPSRVHKGKFYALPQSPQLFKQLLMMSGFDRYYQIVKCFR 217
Query: 326 AEDSYTHRHLCEFTGLDVEMEIKKHYS-----EVMDIVDCLFVTIFDSLNNVCKKELEAV 380
ED R EFT +DVE S +V ++++ L ++ + V +L
Sbjct: 218 DEDLRADRQP-EFTQIDVET------SFMTAPQVREVMEALVRHLWLEVKGV---DLG-- 265
Query: 381 AKQYPFEPLKYKPKTLRLTFEE 402
F +TF E
Sbjct: 266 ----DFP---------VMTFAE 274
>3bju_A Lysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP- binding,
cytoplasm, ligase, nucleotide-binding, phosphoprotein,
polymorphism; HET: LYS ATP; 2.31A {Homo sapiens}
Length = 521
Score = 71.4 bits (176), Expect = 2e-13
Identities = 82/360 (22%), Positives = 133/360 (36%), Gaps = 77/360 (21%)
Query: 102 LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNES 161
L D + + GR+H R G KL F +R +Q +A + +E + L
Sbjct: 53 LTDITLKVAGRIHAKRASGGKLIFYDLRGEGVKLQVMANSRNYKSEEEFIHINNKLR--- 109
Query: 162 IVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGV 221
D+IGV P G T++ E+ I EI S
Sbjct: 110 RGDIIGVQGNP-----GKTKKGELSII--------PY-------------EITLLSPCLH 143
Query: 222 QLPRV-----NQDTRLNNRVIDIRTLANQG---IFRIQSQVGNIFRQFLLSENFVEIHTP 273
LP + +++TR R +D+ + N F I+S++ R FL F+EI TP
Sbjct: 144 MLPHLHFGLKDKETRYRQRYLDL--ILNDFVRQKFIIRSKIITYIRSFLDELGFLEIETP 201
Query: 274 KL--IAGSSEGGSAVFR--------LD---YKGQSACLAQSPQLHKQMSICGDFGRVFET 320
+ I G G A + LD Y + +P+L+ +M + G RV+E
Sbjct: 202 MMNIIPG---GAVA--KPFITYHNELDMNLY------MRIAPELYHKMLVVGGIDRVYEI 250
Query: 321 GPVFRAE--DSYTHRHLCEFTGLDVEMEI---KKHYSEVMDIVDCLFVTIFDSLNNVCKK 375
G FR E D H EFT E Y ++M+I + + + + K
Sbjct: 251 GRQFRNEGID---LTHNPEFT----TCEFYMAYADYHDLMEITEKMVSGMVKHITGSYKV 303
Query: 376 ELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
+ + + P R+ E ++ K G+++ TE RK+ +
Sbjct: 304 TYHPDGPEGQAYDVDFTPPFRRINMVEELE--KALGMKLPETNLFETEETRKILDDICVA 361
>3a5y_A GENX, putative lysyl-tRNA synthetase; aminoacyl-tRNA synthetase
paralog, translation, lysyl- synthetase, lysyladenylate
analog; HET: KAA; 1.90A {Escherichia coli} PDB: 3a5z_A*
3g1z_A*
Length = 345
Score = 56.0 bits (136), Expect = 8e-09
Identities = 34/209 (16%), Positives = 59/209 (28%), Gaps = 50/209 (23%)
Query: 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKL---IAGSSEGGSAV-FRLDYKGQSACLAQ-- 300
++ + R+F +E+ TP + V F + G
Sbjct: 35 NLLKRAAIMAEIRRFFADRGVLEVETPCMSQATVT---DIHLVPFETRFVGPGHSQGMNL 91
Query: 301 ----SPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI---KKHYSE 353
SP+ H + + G VF+ FR E+ H EFT +E
Sbjct: 92 WLMTSPEYHMKRLLVAGCGPVFQLCRSFRNEEMGR-YHNPEFT----MLEWYRPHYDMYR 146
Query: 354 VMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLT--------FEEGVQ 405
+M+ VD L + V E L Y+ LR + +
Sbjct: 147 LMNEVDDLL---------------QQVLDCPAAESLSYQQAFLRYLEIDPLSADKTQLRE 191
Query: 406 MLKDAGVEIDPLGDLNTESERKLGQLVLE 434
+ + ++E L+
Sbjct: 192 VAAKLDLSNVA------DTEEDRDTLLQL 214
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 56.8 bits (136), Expect = 1e-08
Identities = 48/333 (14%), Positives = 95/333 (28%), Gaps = 101/333 (30%)
Query: 153 FVRSLSNESIVDVI-GVVSVPDV-EIKGATQQVEVQIKKLYCVSRAAKTPIT---IEDAS 207
FV + + + D+ ++S ++ I + V +L+ + + + +E+
Sbjct: 29 FVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVS-GTLRLFWTLLSKQEEMVQKFVEEVL 87
Query: 208 RSEAE--IEKASKEGVQLPRVNQDT------RLNNRVIDIRTLANQGIFRIQSQVGNIFR 259
R + + E Q P + RL N D + A + R+Q + R
Sbjct: 88 RINYKFLMSPIKTEQRQ-PSMMTRMYIEQRDRLYN---DNQVFAKYNVSRLQ-PYLKL-R 141
Query: 260 QFLL---SENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLA----QSPQLHKQMSICG 312
Q LL V I G GS G++ +A S ++ +M
Sbjct: 142 QALLELRPAKNVLID------GV--LGS--------GKT-WVALDVCLSYKVQCKMD-FK 183
Query: 313 ----DFGRVFETGPVF----------------RAEDSYTHRHLCEFTGLDVEMEIK---- 348
+ V R++ S + ++ E++
Sbjct: 184 IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH----SIQAELRRLLK 239
Query: 349 -KHYSEVMDIVD--------------C--LFVT----IFDSLNNVCKKELEAVAKQYPFE 387
K Y + ++ C L T + D L+ +
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLT 299
Query: 388 PLKYKPKTLRL---TFEEGVQMLKDAGVEIDPL 417
P + L + Q L + +P
Sbjct: 300 P----DEVKSLLLKYLDCRPQDLPREVLTTNPR 328
Score = 43.3 bits (101), Expect = 2e-04
Identities = 39/282 (13%), Positives = 87/282 (30%), Gaps = 61/282 (21%)
Query: 97 ALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRS 156
L+ +D + V TT P + +R+ ++T V D ++ + +
Sbjct: 310 YLDCRPQD----LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNV 365
Query: 157 LSNESIVDVIGVVSV--PDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIE 214
L + +SV P I + + ++ + + + + +E
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHI---PTIL---LSLIWFDV-IKSDVMVVVNKLHKYSLVE 418
Query: 215 KASKE------GVQL---PRVNQDTRLNNRVID----IRTLANQGIFRI----------- 250
K KE + L ++ + L+ ++D +T + +
Sbjct: 419 KQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIG 478
Query: 251 -------QSQVGNIFRQFLLSENFVE---IHTPKLIAGSSEGGSAVFRLD-YKGQSACLA 299
+ +FR L F+E H S + + +L YK
Sbjct: 479 HHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPY--ICD 536
Query: 300 QSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGL 341
P+ + ++ DF + + E + ++T L
Sbjct: 537 NDPKYERLVNAILDF--------LPKIE---ENLICSKYTDL 567
Score = 38.3 bits (88), Expect = 0.006
Identities = 20/97 (20%), Positives = 35/97 (36%), Gaps = 19/97 (19%)
Query: 330 YTHRHLCEFTGLDVEM-EIKKHYSEVM-----DIV---DCLFVTIFDSLNNV-CKKELEA 379
+ H H+ D E E + Y +++ V DC V D ++ K+E++
Sbjct: 2 HHHHHM------DFETGEHQYQYKDILSVFEDAFVDNFDCKDVQ--DMPKSILSKEEIDH 53
Query: 380 VAKQ-YPFEPLKYKPKTLRLTFEEGVQMLKDAGVEID 415
+ TL EE VQ + + I+
Sbjct: 54 IIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRIN 90
>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 = 50.4 bits (120), Expect = 8e-07
Identities = 48/309 (15%), Positives = 89/309 (28%), Gaps = 117/309 (37%)
Query: 166 IGVVS---VPDVEIKGATQQVEVQIKKLYCVSRAAKTP-ITIEDASRSEAE--IEKASKE 219
IGV P+ + + + ++ + +P ++I + ++ + + + K +
Sbjct: 306 IGVRCYEAYPNTSLPPSILEDSLE------NNEGVPSPMLSISNLTQEQVQDYVNKTNSH 359
Query: 220 G-----VQLPRVNQDTRLNNRVI-----DIRTLANQGIFR--------IQSQVGNIF--R 259
V++ VN N V+ + L R QS++ F R
Sbjct: 360 LPAGKQVEISLVN--GA-KNLVVSGPPQSLYGLNLT--LRKAKAPSGLDQSRIP--FSER 412
Query: 260 QFLLSENFVEI----HTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFG 315
+ S F+ + H+ L S + D + + I
Sbjct: 413 KLKFSNRFLPVASPFHSHLL-----VPASDLINKDLVKNNVSFNAK-----DIQI----- 457
Query: 316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKK 375
PV+ D++ L +G E IVDC+
Sbjct: 458 ------PVY---DTFDGSDLRVLSGSISE-----------RIVDCIIR------------ 485
Query: 376 ELEAVAKQYPFEPLKYKPKTLR------LTFEEG--------VQMLKDA-GVEIDPLGDL 420
P+K+ T + L F G KD GV + G L
Sbjct: 486 -----------LPVKW-ETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTL 533
Query: 421 NTESERKLG 429
+ + G
Sbjct: 534 DINPDDDYG 542
Score = 37.7 bits (87), Expect = 0.008
Identities = 40/243 (16%), Positives = 76/243 (31%), Gaps = 64/243 (26%)
Query: 154 VRS--LSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEA 211
R LS+ S+ V+ VP A+Q E K L + +D + A
Sbjct: 6 TRPLTLSHGSLEHVL---LVPTASFFIASQLQEQFNKILPEPTEG----FAADDEPTTPA 58
Query: 212 EI----------EKASKEGVQLPRV-----NQDTR--LNNRVIDIRTLA---NQGIFRIQ 251
E+ + Q +V + L DI LA Q
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGN--DIHALAAKLLQENDTTL 116
Query: 252 SQVGNIFRQF-----LLSENFVEIHTPKLIAGSSEGGS---AVFRLDYKGQ---SACLAQ 300
+ + + + + F + L EG + A+F GQ
Sbjct: 117 VKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIF----GGQGNTDDYF-- 170
Query: 301 SPQLHKQMSICGDFGRVFETGPVFRAED--SYTHRHLCEFTGLDVEMEIKKHYSEVMDIV 358
+L +++T V D ++ L E + ++ +K +++ ++I+
Sbjct: 171 -EELRD----------LYQTYHVL-VGDLIKFSAETLSEL--IRTTLDAEKVFTQGLNIL 216
Query: 359 DCL 361
+ L
Sbjct: 217 EWL 219
Score = 31.2 bits (70), Expect = 0.91
Identities = 26/142 (18%), Positives = 49/142 (34%), Gaps = 32/142 (22%)
Query: 256 NIFRQFLLSENFVEIHT--PKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQMSIC 311
F L N +IH KL+ + L +Y + +A+ P K S
Sbjct: 89 TEFENCYLEGN--DIHALAAKLLQENDTTLVKTKELIKNYI-TARIMAKRPFDKKSNS-- 143
Query: 312 GDFGRVFETGPVFRAEDSYTHRHLCEFTG-------LDVEM-EIKKHYSEVMDIVDCLFV 363
+FRA + + F G + E+ ++ + Y +V L
Sbjct: 144 ----------ALFRAVGEGNAQLVAIFGGQGNTDDYFE-ELRDLYQTYH---VLVGDLIK 189
Query: 364 TIFDSLNNVCKKELEAVAKQYP 385
++L+ + + L+A K +
Sbjct: 190 FSAETLSELIRTTLDA-EKVFT 210
Score = 29.2 bits (65), Expect = 3.0
Identities = 28/133 (21%), Positives = 49/133 (36%), Gaps = 31/133 (23%)
Query: 44 AAASAASALSIEEE-------GPLANNYGDVPLQELQSVN------DPQT---GKWSEAV 87
A AS A +SIE G VP EL N +P EA+
Sbjct: 1769 ALASLADVMSIESLVEVVFYRGMTMQV--AVPRDELGRSNYGMIAINPGRVAASFSQEAL 1826
Query: 88 SGREWTE-VGALNGSL--------KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCL 138
+ E VG G L ++Q+ + G + V N L F+ ++ ++ ++
Sbjct: 1827 --QYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQ-KIDIIELQ 1883
Query: 139 ATVKPDSVSKEMV 151
++ + V + +
Sbjct: 1884 KSLSLEEV-EGHL 1895
>3a74_A Lysyl-tRNA synthetase; aminoacyl tRNA synthetase, ligase, protein
biosynthesis, AMI tRNA synthetase, ATP-binding,
magnesium; HET: B4P LYN; 1.80A {Geobacillus
stearothermophilus} PDB: 3e9h_A* 3e9i_A*
Length = 493
Score = 50.2 bits (121), Expect = 9e-07
Identities = 80/365 (21%), Positives = 140/365 (38%), Gaps = 100/365 (27%)
Query: 103 KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESI 162
+ EV + GR+ T R +G K F +++ +Q V+ D V ++ + +
Sbjct: 55 QQIEVAVAGRIMTKRGMG-KAGFAHIQDVTGQIQIY--VRQDDVGEQQYELFKISD---L 108
Query: 163 VDVIGVVSVPDVEIKGA---TQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKE 219
D++GV +G T+ E+ IK VS E +K
Sbjct: 109 GDIVGV--------RGTMFKTKVGELSIK----VS-----------------SYEFLTKA 139
Query: 220 GVQLPRV-----NQDTRLNNRVIDIRTLANQG---IFRIQSQVGNIFRQFLLSENFVEIH 271
LP + + R R +D+ + N F +S + R++L S ++E+
Sbjct: 140 LRPLPEKYHGLKDIEQRYRQRYLDL--IMNPESKKTFITRSLIIQSMRRYLDSHGYLEVE 197
Query: 272 TPKL--IAGSSEGGSAVFR--------LD---YKGQSACLAQSPQLH-KQMSICGDFGRV 317
TP + +AG G +A R LD Y + + +LH K++ I G +V
Sbjct: 198 TPMMHAVAG---GAAA--RPFITHHNALDMTLY------MRIAIELHLKRL-IVGGLEKV 245
Query: 318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEI---KKHYSEVMDIVDCLFVTIFDSLNNVCK 374
+E G VFR E T RH EFT +E+ + ++M + + L I +
Sbjct: 246 YEIGRVFRNEGIST-RHNPEFT----MLELYEAYADFRDIMKLTENLIAHIATEVLG--T 298
Query: 375 KELEAVAKQYPFEP-----------LKYKPKTLR--LTFEEGVQMLKDAGVEIDP---LG 418
+++ P +Y ++ EE ++ K+ GVE+ P G
Sbjct: 299 TKIQYGEHLVDLTPEWRRLHMVDAIKEYVGVDFWRQMSDEEARELAKEHGVEVAPHMTFG 358
Query: 419 DLNTE 423
+ E
Sbjct: 359 HIVNE 363
>1e1o_A Lysyl-tRNA synthetase, heat inducible; ligase, aminoacyl-tRNA
synthetase, protein biosynthesis; HET: LYS; 2.12A
{Escherichia coli} SCOP: b.40.4.1 d.104.1.1 PDB: 1e1t_A*
1e22_A* 1e24_A* 1lyl_A 1bbu_A* 1bbw_A 1krs_A 1krt_A
Length = 504
Score = 48.3 bits (116), Expect = 3e-06
Identities = 52/211 (24%), Positives = 88/211 (41%), Gaps = 53/211 (25%)
Query: 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSAVFR--------LD---YKG 293
F ++S++ RQF+++ F+E+ TP + I G G SA R LD Y
Sbjct: 182 TFVVRSKILAAIRQFMVARGFMEVETPMMQVIPG---GASA--RPFITHHNALDLDMY-- 234
Query: 294 QSACLAQSPQLH-KQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI---KK 349
L +P+L+ K++ + G F RVFE FR E RH EFT ME+
Sbjct: 235 ----LRIAPELYLKRL-VVGGFERVFEINRNFRNEGISV-RHNPEFT----MMELYMAYA 284
Query: 350 HYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEP-----------LKYKP---KT 395
Y +++++ + LF T+ + ++ + F KY+P
Sbjct: 285 DYHDLIELTESLFRTLAQEVLG--TTKVTYGEHVFDFGKPFEKLTMREAIKKYRPETDMA 342
Query: 396 LRLTFEEGVQMLKDAGVEIDP---LGDLNTE 423
F+ + + G+ ++ LG + TE
Sbjct: 343 DLDNFDAAKALAESIGITVEKSWGLGRIVTE 373
>4ex5_A Lysine--tRNA ligase; structural genomics, niaid, national institute
of allergy AN infectious diseases; HET: LYS; 2.40A
{Burkholderia thailandensis}
Length = 529
Score = 46.4 bits (111), Expect = 1e-05
Identities = 40/141 (28%), Positives = 58/141 (41%), Gaps = 34/141 (24%)
Query: 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKL--IAGSSEGGSAVFR--------LD---YKG 293
FR +++ R+F+ +F+E+ TP L I G G +A + LD +
Sbjct: 203 TFRARTKAIASIRKFMGDADFMEVETPMLHPIPG---GAAA--KPFVTHHNALDMEMF-- 255
Query: 294 QSACLAQSPQLH-KQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI---KK 349
L +P+L+ K++ I G F RVFE FR E RH EFT ME
Sbjct: 256 ----LRIAPELYLKRL-IVGGFERVFEINRNFRNEGVSP-RHNPEFT----MMEFYAAYT 305
Query: 350 HYSEVMDIVDCLFVTIFDSLN 370
Y +MD + L
Sbjct: 306 DYRWLMDFTERLIRQAAVDAL 326
>3qtc_A Pyrrolysyl-tRNA synthetase; aminoacyl-tRNA synthetase, ATP B
O-methyl tyrosine binding, magnesium binding,
aminoacylatio esterification; HET: 0A1 ANP; 1.75A
{Methanosarcina mazei} PDB: 2q7e_A* 2q7g_A* 2q7h_A*
2zim_A* 2zin_A* 2e3c_A* 2zcd_A* 2zce_A* 2zio_A*
Length = 290
Score = 42.6 bits (100), Expect = 1e-04
Identities = 37/215 (17%), Positives = 69/215 (32%), Gaps = 29/215 (13%)
Query: 194 SRAAKTP-ITIEDASRSEAEIEKASKEGVQLPRVNQDTR---LNNRVIDIRTLANQGIFR 249
S A P +T R E + + + + ++ L+ R D++ + +
Sbjct: 18 SHGASAPALTKSQTDRLEVLLNPKDEISLNSGKPFRELESELLSRRKKDLQQIYAEEREN 77
Query: 250 IQSQVGNIFRQFLLSENFVEIHTPKLI------AGSSEGGSAVFRLDYKGQ--------- 294
++ +F + F+EI +P LI + + + + ++
Sbjct: 78 YLGKLEREITRFFVDRGFLEIKSPILIPLEYIERMGIDNDTELSKQIFRVDKNFCLRPML 137
Query: 295 SACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVE-MEIKKHYSE 353
+ L L K D ++FE GP +R E HL EFT L M
Sbjct: 138 TPNLYNY--LRKLDRALPDPIKIFEIGPCYRKESD-GKEHLEEFTMLVFWQMGSGCTREN 194
Query: 354 VMDIVDCLF------VTIFDSLNNVCKKELEAVAK 382
+ I+ I V L+ +
Sbjct: 195 LESIITDFLNHLGIDFKIVGDSCMVFGDTLDVMHG 229
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 36.7 bits (84), Expect = 0.007
Identities = 9/50 (18%), Positives = 19/50 (38%), Gaps = 6/50 (12%)
Query: 5 SEPPKVQEEVDSSSQSISK--KAAKKEAAKKAKEERRKEAEAAASAASAL 52
++ ++ +E +SI K + +K + + E E A L
Sbjct: 75 AQADRLTQE----PESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDL 120
Score = 34.0 bits (77), Expect = 0.059
Identities = 13/67 (19%), Positives = 29/67 (43%), Gaps = 12/67 (17%)
Query: 1 MSTESEP--------PKVQEEVDSSSQSISKKAAKKEAAKKAKEE--RRKEAEAAASAAS 50
++ E E K +E+D++S+ + +E AKK EE +R+ + + +
Sbjct: 80 LTQEPESIRKWREEQRKRLQELDAASKV--MEQEWREKAKKDLEEWNQRQSEQVEKNKIN 137
Query: 51 ALSIEEE 57
++
Sbjct: 138 NRIADKA 144
>1x49_A Interferon-induced, double-stranded RNA- activated protein
kinase; structure genomics, DSRM domain, structural
genomics, NPPSFA; NMR {Mus musculus} SCOP: d.50.1.1
Length = 97
Score = 31.2 bits (71), Expect = 0.17
Identities = 8/29 (27%), Positives = 13/29 (44%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAASAAS 50
SK+ A+ AAK A + E + +
Sbjct: 65 SKQEARNAAAKLAVDILDNENKVDCHTSG 93
>3nku_A DRRA, SIDM; posttranslational modification, ampylation,
adenylylation, R RAB1, vesicular transport, protein
transport; HET: MSE PGE; 2.10A {Legionella pneumophila
subsp}
Length = 213
Score = 32.0 bits (72), Expect = 0.24
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 1/48 (2%)
Query: 365 IFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGV 412
+FD+LNN+C++ A + YP +P+ P L T ++ MLKD V
Sbjct: 124 VFDALNNLCQRIFTASNQIYP-DPIGINPSRLIGTPDDLFGMLKDGMV 170
>1qu6_A Protein kinase PKR; dsRNA-binding domain, solution structure,
transferase; NMR {Homo sapiens} SCOP: d.50.1.1 d.50.1.1
Length = 179
Score = 31.0 bits (70), Expect = 0.46
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAA 46
+K+ AK+ AAK A + E +
Sbjct: 154 TKQEAKQLAAKLAYLQILSEETGSG 178
Score = 28.7 bits (64), Expect = 2.5
Identities = 17/65 (26%), Positives = 24/65 (36%), Gaps = 1/65 (1%)
Query: 9 KVQEEVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVP 68
+ + SKK AK AAK A E KE +A + + EG NY
Sbjct: 51 IIDGREFPEGEGRSKKEAKNAAAKLAVEILNKEKKAVSPLLLTTTNSSEGLSMGNYIG-L 109
Query: 69 LQELQ 73
+ +
Sbjct: 110 INRIA 114
>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 = 30.7 bits (68), Expect = 0.55
Identities = 10/29 (34%), Positives = 16/29 (55%), Gaps = 3/29 (10%)
Query: 27 KKEAAKKAKEERRKEAEAAASAASALSIE 55
+K+A KK + K A +A AL+I+
Sbjct: 18 EKQALKKL-QASLK--LYADDSAPALAIK 43
Score = 27.6 bits (60), Expect = 5.5
Identities = 8/28 (28%), Positives = 12/28 (42%), Gaps = 4/28 (14%)
Query: 375 KELEAVAKQYPFEPLKYKPK-TLRLTFE 401
K+L+A K Y P ++ T E
Sbjct: 23 KKLQASLKLY--AD-DSAPALAIKATME 47
>2zkq_b 40S ribosomal protein SA; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 295
Score = 31.2 bits (70), Expect = 0.60
Identities = 13/76 (17%), Positives = 23/76 (30%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTG 81
+ +KE A++ KE A A P ++ + + T
Sbjct: 206 DPEEIEKEEQAAAEKAVTKEEFQGEWTAPAPEFTAAQPEVADWSEGVQVPSVPIQQFPTE 265
Query: 82 KWSEAVSGREWTEVGA 97
WS S +W+
Sbjct: 266 DWSAQPSTEDWSAAPT 281
>3dsq_A Pyrrolysyl-tRNA synthetase; homodimer, aminoacyl-tRNA synthetase,
ligase; 2.10A {Desulfitobacterium hafniense} PDB: 2znj_A
2zni_A
Length = 288
Score = 31.0 bits (70), Expect = 0.64
Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 316 RVFETGPVFRAEDSYTHRHLCEFTGLDVE---MEIKKHYSEVMDIVDCLF 362
R+FE G +R E +HL EFT L++ +++ + + D+ +
Sbjct: 151 RIFEIGTCYRKESQGA-QHLNEFTMLNLTELGTPLEERHQRLEDMARWVL 199
>155c_A Cytochrome C550; electron transport; HET: HEM; 2.50A {Paracoccus
denitrificans} SCOP: a.3.1.1
Length = 135
Score = 28.9 bits (65), Expect = 1.5
Identities = 14/61 (22%), Positives = 23/61 (37%), Gaps = 2/61 (3%)
Query: 85 EAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPD 144
E WTE L + D + L++ K+ F + + + V LA PD
Sbjct: 64 EKNPDLTWTE-ANLIEYVTDPKPLVKKMTDDKGA-KTKMTFKMGKNQADVVAFLAQDDPD 121
Query: 145 S 145
+
Sbjct: 122 A 122
>2b7t_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding
protein, hydrolase; NMR {Rattus norvegicus} SCOP:
d.50.1.1 PDB: 2l3c_A
Length = 73
Score = 27.6 bits (62), Expect = 1.8
Identities = 8/13 (61%), Positives = 10/13 (76%)
Query: 22 SKKAAKKEAAKKA 34
+KK AK AA+KA
Sbjct: 53 TKKKAKLHAAEKA 65
>3l96_A Citrate synthase; quaternary, hexamer, GRAM-negative bacteri
allostery, oxaloacetate, acetylcoa, NADH, allosteric
enzyme transferase; 1.90A {Escherichia coli} PDB:
3l97_A* 3l98_A* 3l99_A 1k3p_A 1nxe_A 1nxg_A* 1owb_A*
1owc_A 4e6y_A
Length = 426
Score = 30.0 bits (68), Expect = 1.9
Identities = 15/42 (35%), Positives = 25/42 (59%), Gaps = 2/42 (4%)
Query: 207 SRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIF 248
+ ++A++ V+L V + T L VIDIRTL ++G+F
Sbjct: 1 ADTKAKLTLNGDTAVELD-VLKGT-LGQDVIDIRTLGSKGVF 40
>3bn0_A 30S ribosomal protein S16; ribonucleoprotein, ribosome; 2.00A
{Aquifex aeolicus} SCOP: d.27.1.1
Length = 112
Score = 28.1 bits (63), Expect = 2.0
Identities = 4/24 (16%), Positives = 9/24 (37%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAA 46
K + +E ++ + AA
Sbjct: 89 MKRVGDYYVFEKRESKKSKGGEAA 112
Score = 26.5 bits (59), Expect = 7.1
Identities = 4/28 (14%), Positives = 10/28 (35%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAAS 50
+ K E+R+ ++ A+
Sbjct: 85 EGYEMKRVGDYYVFEKRESKKSKGGEAA 112
>2l33_A Interleukin enhancer-binding factor 3; structural genomics,
northeast structural genomics consortiu PSI-biology,
protein structure initiative, DRBM; NMR {Homo sapiens}
Length = 91
Score = 27.8 bits (62), Expect = 2.2
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAASA 48
+KK AK AA A E+ + A A
Sbjct: 63 NKKVAKAYAALAALEKLFPDTPLALDA 89
>1zvu_A Topoisomerase IV subunit A; beta-pinwheel, ATPase, supercoiling,
decatenation, DNA bindi topology; 3.00A {Escherichia
coli}
Length = 716
Score = 29.5 bits (67), Expect = 2.6
Identities = 22/55 (40%), Positives = 30/55 (54%), Gaps = 8/55 (14%)
Query: 333 RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDS---LNNVCKKELEAVAKQY 384
RHL L+ EM+I+ SE+ D L I S +NN+ KKEL+A A+ Y
Sbjct: 397 RHL---AKLE-EMKIRGEQSELEKERDQL-QGILASERKMNNLLKKELQADAQAY 446
>3p1x_A Interleukin enhancer-binding factor 3; structural genomics,
PSI-biology, protein structure initiati northeast
structural genomics consortium, NESG; 1.90A {Homo
sapiens}
Length = 75
Score = 26.8 bits (60), Expect = 3.1
Identities = 7/13 (53%), Positives = 8/13 (61%)
Query: 22 SKKAAKKEAAKKA 34
+KK AK AA A
Sbjct: 53 NKKVAKAYAALAA 65
>2kqr_A Asparaginyl-tRNA synthetase, cytoplasmic; aminoacyl-tRNA
synthetase, ATP-binding, ligas nucleotide-binding,
protein biosynthesis; NMR {Brugia malayi}
Length = 113
Score = 27.7 bits (61), Expect = 3.4
Identities = 10/39 (25%), Positives = 15/39 (38%)
Query: 23 KKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLA 61
K K A K+ +AA A + IE + L+
Sbjct: 73 LKNEKVAAKMLEKDATEVGVKAALEEAKKVQIELDTSLS 111
>2dix_A Interferon-inducible double stranded RNA- dependent protein
kinase activator A; structure genomics, DSRM domain,
hypothetical protein PRKRA; NMR {Homo sapiens} SCOP:
d.50.1.1
Length = 84
Score = 26.9 bits (60), Expect = 3.4
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAASA 48
SKK AK AA+ A + A +S
Sbjct: 58 SKKLAKHRAAEAAINILKANASGPSSG 84
>2b7v_A Double-stranded RNA-specific editase 1; RNA editing, RNA-binding
protein, hydrolase; NMR {Rattus norvegicus} SCOP:
d.50.1.1 PDB: 2l2k_B
Length = 71
Score = 26.5 bits (59), Expect = 3.5
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 22 SKKAAKKEAAKKA 34
+KK AK AA+ A
Sbjct: 50 NKKLAKARAAQSA 62
>3c4b_A Endoribonuclease dicer; RNAse, dsRNA binding protein, ATP-binding,
endonuclease, HEL hydrolase, nucleotide-binding,
phosphoprotein, RN binding; HET: MSE; 1.68A {Mus
musculus} PDB: 3c4t_A 2eb1_A
Length = 265
Score = 28.2 bits (63), Expect = 4.5
Identities = 7/26 (26%), Positives = 12/26 (46%)
Query: 9 KVQEEVDSSSQSISKKAAKKEAAKKA 34
+V + S + AK AA++A
Sbjct: 232 EVVGKGKFKGVGRSYRIAKSAAARRA 257
>2ljh_A Double-stranded RNA-specific editase ADAR; DSRBD, DSRBM, editing,
hydrolase; NMR {Drosophila melanogaster}
Length = 114
Score = 27.2 bits (60), Expect = 4.9
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAASA 48
SKK A+ EAA A + + A +
Sbjct: 83 SKKVARIEAAATALRSFIQFKDGAVLS 109
>2y8n_A 4-hydroxyphenylacetate decarboxylase large subuni; lyase, radical
chemistry, metalloenzyme, iron-sulfur center; 1.75A
{Clostridium scatologenes} PDB: 2yaj_A*
Length = 897
Score = 28.5 bits (63), Expect = 4.9
Identities = 11/112 (9%), Positives = 25/112 (22%), Gaps = 19/112 (16%)
Query: 310 ICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI--KKHYSEVMDIVDCLFVTIFD 367
++ + G + D + +Y M + +
Sbjct: 224 EVINYYMPLQYGFDGIIKLCDEKIAEVMGEAGDDGDFGMSRGYYYAAMKEITKGLSAWCE 283
Query: 368 SL------------NNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQML 407
+ ++ K E + + KP E +QM
Sbjct: 284 NYSKRAKYLASIETDSEIKANYEKIEEVMGNIA-HKKPANFW----EAIQMT 330
>1ekz_A DSRBDIII, maternal effect protein (staufen); structure,
protein/RNA, protein DSRBD, RNA hairpin; NMR
{Drosophila melanogaster} SCOP: d.50.1.1 PDB: 1stu_A
Length = 76
Score = 26.5 bits (59), Expect = 5.0
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 22 SKKAAKKEAAKKA 34
KK +KK AA+K
Sbjct: 57 GKKVSKKRAAEKM 69
>3od1_A ATP phosphoribosyltransferase regulatory subunit; structural
genomics, PSI-2, protein structure initiative; 1.97A
{Bacillus halodurans}
Length = 400
Score = 28.4 bits (64), Expect = 5.1
Identities = 9/30 (30%), Positives = 15/30 (50%), Gaps = 1/30 (3%)
Query: 316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEM 345
R+ V+RA+ + + EF L VE+
Sbjct: 105 RLAYQSNVYRAQQNEGGK-PAEFEQLGVEL 133
>3llh_A RISC-loading complex subunit tarbp2; DSRBD, DSRM, microrna, RNA
binding protein; 2.14A {Homo sapiens}
Length = 90
Score = 26.5 bits (59), Expect = 5.1
Identities = 9/13 (69%), Positives = 11/13 (84%)
Query: 22 SKKAAKKEAAKKA 34
SKKAAK +AA+ A
Sbjct: 64 SKKAAKHKAAEVA 76
>3adl_A RISC-loading complex subunit tarbp2; TRBP2, miRNA processing,
gene regulation-RNA complex; 2.20A {Homo sapiens}
Length = 88
Score = 26.5 bits (59), Expect = 5.3
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 22 SKKAAKKEAAKKA 34
SKK AK+ AA K
Sbjct: 66 SKKLAKRNAAAKM 78
>1uhz_A Staufen (RNA binding protein) homolog 2; DSRM, staufen homolog 2,
structural genomics, riken structural
genomics/proteomics initiative, RSGI; NMR {Mus
musculus} SCOP: d.50.1.1
Length = 89
Score = 26.5 bits (59), Expect = 5.6
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 22 SKKAAKKEAAKKA 34
+KK AKK AA+
Sbjct: 57 NKKIAKKNAAEAM 69
>1khc_A DNA cytosine-5 methyltransferase 3B2; five beta-sheets barrel
followed by five-helix bundle; HET: DNA; 1.80A {Mus
musculus} SCOP: b.34.9.2 PDB: 3flg_A* 3qkj_A*
Length = 147
Score = 27.5 bits (60), Expect = 5.8
Identities = 8/41 (19%), Positives = 20/41 (48%)
Query: 17 SSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEE 57
+ + +K + ++A E+ R A S++ S+E++
Sbjct: 77 NLATFNKLVSYRKAMYHTLEKARVRAGKTFSSSPGESLEDQ 117
>1zgk_A Kelch-like ECH-associated protein 1; beta-propeller, kelch repeat
motif, protein binding; HET: MSE; 1.35A {Homo sapiens}
SCOP: b.68.11.1 PDB: 2flu_X 1u6d_X 1x2j_A 1x2r_A 2dyh_A
2z32_A 3ade_A
Length = 308
Score = 28.1 bits (63), Expect = 5.8
Identities = 5/29 (17%), Positives = 10/29 (34%), Gaps = 3/29 (10%)
Query: 77 DPQTGKWSEAVS---GREWTEVGALNGSL 102
P+ +W + R V L+ +
Sbjct: 190 YPERNEWRMITAMNTIRSGAGVCVLHNCI 218
>1di2_A XLRBPA, double stranded RNA binding protein A; protein-RNA
complex, protein-RNA interactions, RNA-bining protein;
1.90A {Xenopus laevis} SCOP: d.50.1.1
Length = 69
Score = 26.0 bits (58), Expect = 6.2
Identities = 7/13 (53%), Positives = 10/13 (76%)
Query: 22 SKKAAKKEAAKKA 34
SK+ AK+ AA+K
Sbjct: 51 SKQVAKRVAAEKL 63
>2xkj_E Topoisomerase IV; type IIA topoisomerase; 2.20A {Acinetobacter
baumannii} PDB: 2xkk_A*
Length = 767
Score = 28.1 bits (63), Expect = 6.3
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 8/55 (14%)
Query: 333 RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDS---LNNVCKKELEAVAKQY 384
RHL L+ EMEI+ E+ + ++ L N+ EL+ AK++
Sbjct: 691 RHL---AKLE-EMEIRHEQDELSAKAAII-REQLENPESLKNLIISELKEDAKKF 740
>2l3j_A Double-stranded RNA-specific editase 1; editing, dsRNA recognition,
DSRBM, hydrolase-RNA complex; NMR {Rattus norvegicus}
Length = 236
Score = 27.6 bits (60), Expect = 6.5
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 22 SKKAAKKEAAKKA 34
+KK AK AA+ A
Sbjct: 207 NKKLAKARAAQSA 219
>2dmy_A Spermatid perinuclear RNA-binding protein; DSRM domain,
structural genomics, NPPSFA, national project on
protein structural and functional analyses; NMR {Homo
sapiens} SCOP: d.50.1.1
Length = 97
Score = 26.3 bits (58), Expect = 8.1
Identities = 7/13 (53%), Positives = 7/13 (53%)
Query: 22 SKKAAKKEAAKKA 34
SKK AK A K
Sbjct: 65 SKKTAKLHVAVKV 77
>2e5a_A Lipoyltransferase 1; lipoyl-AMP, ligase; HET: LAQ; 2.10A {Bos
taurus} PDB: 3a7u_A
Length = 347
Score = 27.6 bits (61), Expect = 8.2
Identities = 13/72 (18%), Positives = 23/72 (31%), Gaps = 5/72 (6%)
Query: 317 VFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKE 376
++ P F + S+T H + V +++K I C L +
Sbjct: 246 IYGKTPKFSVDTSFTVLHEQSHVEIKVFIDVKNGR-----IEVCNIEAPDHWLPLEICDQ 300
Query: 377 LEAVAKQYPFEP 388
L + F P
Sbjct: 301 LNSSLIGSKFSP 312
>2pfy_A Putative exported protein; extracytoplasmic solute receptor,
tripartite ATP independent periplasmic transport,
pyroglutamic acid; 1.95A {Bordetella pertussis tohama I}
Length = 301
Score = 27.7 bits (62), Expect = 8.2
Identities = 14/94 (14%), Positives = 31/94 (32%), Gaps = 8/94 (8%)
Query: 346 EIKKHYSEVMDIVDCLFVTI----FDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFE 401
+ K+Y + + FV F L ++ + + +T R
Sbjct: 194 DYVKYYYDAQAFIPQSFVIANKRAFQRLPAEVRQAVLDAGA----KAEIRGWQTARAKTR 249
Query: 402 EGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435
E L G+ ++PL + + +G ++
Sbjct: 250 ELTDTLARNGMSVEPLPPQLAKELQAIGATMVSD 283
>1z7m_A ATP phosphoribosyltransferase regulatory subunit; ATP-PRT,
histidine biosynthesis, hiszg, alloste evolution; 2.90A
{Lactococcus lactis} SCOP: d.104.1.1 PDB: 1z7n_A*
Length = 344
Score = 27.6 bits (62), Expect = 8.5
Identities = 8/30 (26%), Positives = 13/30 (43%), Gaps = 1/30 (3%)
Query: 316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEM 345
R G +FR E + R E + +E+
Sbjct: 119 RYSYFGKIFRKEKRHKGR-STENYQIGIEL 147
>1x48_A Interferon-induced, double-stranded RNA- activated protein
kinase; structure genomics, DSRM domain, structural
genomics, NPPSFA; NMR {Mus musculus} SCOP: d.50.1.1
Length = 88
Score = 26.2 bits (57), Expect = 8.6
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 22 SKKAAKKEAAKKAKEERRKEAEAAASAASALS 53
+K+ AK+ AAK+A ++ K A + S
Sbjct: 56 TKQEAKQLAAKEAYQKLLKSPPKTAGTSGPSS 87
>2cpn_A TAR RNA-binding protein 2; double-stranded RNA binding domain,
DSRBD, DSRM., structural genomics, NPPSFA; NMR {Homo
sapiens} SCOP: d.50.1.1
Length = 89
Score = 26.1 bits (58), Expect = 8.6
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 22 SKKAAKKEAAKKA 34
SKK AK+ AA K
Sbjct: 67 SKKLAKRNAAAKM 79
>3adj_A F21M12.9 protein; HYL1, miRNA processing, RNA binding protein,
gene regulation; 3.00A {Arabidopsis thaliana} PDB:
2l2m_A
Length = 76
Score = 25.7 bits (57), Expect = 8.8
Identities = 5/13 (38%), Positives = 8/13 (61%)
Query: 22 SKKAAKKEAAKKA 34
+KK A+ A + A
Sbjct: 56 TKKDAEISAGRTA 68
>2xn4_A Kelch-like protein 2; structural protein, cytoskeleton; 1.99A {Homo
sapiens}
Length = 302
Score = 27.6 bits (62), Expect = 8.8
Identities = 8/29 (27%), Positives = 11/29 (37%), Gaps = 3/29 (10%)
Query: 77 DPQTGKWSEAVS---GREWTEVGALNGSL 102
+ T +W+ R VG LN L
Sbjct: 179 NATTNEWTYIAEMSTRRSGAGVGVLNNLL 207
Score = 27.6 bits (62), Expect = 9.0
Identities = 8/29 (27%), Positives = 11/29 (37%), Gaps = 3/29 (10%)
Query: 77 DPQTGKWSEAVS---GREWTEVGALNGSL 102
DP +W+ + R LNG L
Sbjct: 83 DPVKDQWTSVANMRDRRSTLGAAVLNGLL 111
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 27.9 bits (62), Expect = 8.9
Identities = 16/75 (21%), Positives = 25/75 (33%), Gaps = 7/75 (9%)
Query: 15 DSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVP-LQELQ 73
+ S +KA E A + K A+AA + P AN D P L+ +
Sbjct: 747 ELVETSEVRKAVSIETALEHKVVNGNSADAAYAQVEIQ------PRANIQLDFPELKPYK 800
Query: 74 SVNDPQTGKWSEAVS 88
V + +
Sbjct: 801 QVKQIAPAELEGLLD 815
>1dar_A EF-G, elongation factor G; ribosomal translocase, translational
GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP:
b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A
2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A*
1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A*
3izp_E 1zn0_B 1jqs_C 2bcw_C ...
Length = 691
Score = 27.8 bits (63), Expect = 9.2
Identities = 11/25 (44%), Positives = 14/25 (56%), Gaps = 2/25 (8%)
Query: 13 EVDSSSQS--ISKKAAKKEAAKKAK 35
EVDSS + I+ A KEA +K
Sbjct: 574 EVDSSEMAFKIAGSMAIKEAVQKGD 598
>1x47_A DGCR8 protein; structural genomics, DSRM domain, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens} SCOP: d.50.1.1
Length = 98
Score = 26.0 bits (57), Expect = 9.7
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 22 SKKAAKKEAAKKA 34
SKK AK +AA+
Sbjct: 66 SKKLAKNKAARAT 78
>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP,
50S subunit, cryo-EM, REAL-space refinement,
ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H
Length = 704
Score = 27.5 bits (62), Expect = 9.8
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 13 EVDSSSQS--ISKKAAKKEAAKKAK 35
+VDSS + ++ A KE KKAK
Sbjct: 585 DVDSSELAFKLAASIAFKEGFKKAK 609
>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein;
1.90A {Staphylococcus aureus}
Length = 693
Score = 27.5 bits (62), Expect = 9.9
Identities = 12/25 (48%), Positives = 15/25 (60%), Gaps = 2/25 (8%)
Query: 13 EVDSSSQS--ISKKAAKKEAAKKAK 35
+VDSS + I+ A KEAAKK
Sbjct: 573 DVDSSEMAFKIAASLALKEAAKKCD 597
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
0.313 0.130 0.357
Gapped
Lambda K H
0.267 0.0805 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,294,453
Number of extensions: 384435
Number of successful extensions: 1054
Number of sequences better than 10.0: 1
Number of HSP's gapped: 988
Number of HSP's successfully gapped: 94
Length of query: 435
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 339
Effective length of database: 4,021,377
Effective search space: 1363246803
Effective search space used: 1363246803
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 59 (26.4 bits)