RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 012667
(458 letters)
>2dc0_A Probable amidase; structural genomics, NPPSFA, national project on
protein structural and functional analyses; 2.00A
{Thermus thermophilus}
Length = 434
Score = 299 bits (768), Expect = 1e-97
Identities = 115/434 (26%), Positives = 183/434 (42%), Gaps = 54/434 (12%)
Query: 23 FINYNEEDILKQATESTLRYKKGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPC 82
+EE K+A T ++G+ L G+ + VKD PT GTK P
Sbjct: 37 LAYLDEEAARKEALALTEELRRGQVRGPLHGLPLTVKDLFPVKGMPTRAGTKAPLPPLP- 95
Query: 83 TGDACCVMRLRLCGAILVGKTNMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAV 142
+A V RLR GA+L KTNMHE+ G +G NP G RN DPS+ GGSS GSA
Sbjct: 96 -EEARAVRRLREAGALLFAKTNMHEIALGITGENPWTGPVRNAVDPSRQAGGSSGGSAVA 154
Query: 143 VAAGLCPVALGVDGGGSVRMPAALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVE 202
VA G+ +LG D GGS+R+PA GVVGFKP++GR+ L G LPL+ + G L +V
Sbjct: 155 VALGIGLASLGTDTGGSIRIPAGFNGVVGFKPSYGRVSLEGALPLSRSTDHAGPLTRSVR 214
Query: 203 DALVVYAAINGPLPSQQP----TVSLPKVSFPLLKSATSISAIKLAKYDAWFNDCSDDIR 258
DA + + G + +P D ++R
Sbjct: 215 DAHFLTEILAGESIPLEGVQNPVFGVPL--------------------DFLEGRLGVEVR 254
Query: 259 VCCSRAVDKLCERYGWKVVEVTIPNIEVMRLAHYLTIGSECSTSLSSY------LQKINC 312
+R ++ L +V EV++P V E T L Y + +
Sbjct: 255 KAFTRLLEDL-PALRAEVREVSLPLEGV----------YEVYTRLVRYEAARIHEKALKE 303
Query: 313 SDQGWDA----RVALSVYGSFSSQEYIKAQKIRNHQMQIHRNVFAKADVIVVPTTGVTAY 368
+G+ + + + ++Y A R D +++P + A
Sbjct: 304 HPEGFSPQVREALLAGLA--LTEKDYRDAVAEREALRLELVKALRGVDALLLPVQPLPAP 361
Query: 369 EI--KDDALKTGELDYIYGAALVRYQIAGNFLGLPAVTVPVGYDTAGLPIGLQFIGKPWS 426
+ ++ L++G + A + + + LG+P + +P G+P+GLQ +G
Sbjct: 362 PLGTEEVELESGRKGHRE--AFITLTLPFSLLGVPTLALPFA-KVEGMPVGLQVVGAYGE 418
Query: 427 EPTLMHIAFAMQAL 440
+ ++ + ++A
Sbjct: 419 DGKVLALGGWLEAR 432
>1o9p_A Malonamidase E2; malonate; 1.8A {Bradyrhizobium japonicum} SCOP:
c.117.1.1 PDB: 1o9o_A 1obl_A 1och_A 1obk_A 1obi_A
1o9q_A* 1obj_A 1o9n_A 1ock_A 1ocl_A 1ocm_A
Length = 414
Score = 296 bits (761), Expect = 6e-97
Identities = 100/401 (24%), Positives = 155/401 (38%), Gaps = 42/401 (10%)
Query: 45 GEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPCTGDACCVMRLRLCGAILVGKTN 104
+ L G+ + +KD ID + PT G++ +P DA VM L+ GA ++GKT
Sbjct: 48 AQASGPLRGIAVGIKDIIDTANMPTEMGSEIYRGWQP-RSDAPVVMMLKRAGATIIGKTT 106
Query: 105 MHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGLCPVALGVDGGGSVRMPA 164
+ NP++ GG+SSGSAA V AG+ P+ALG GGSV PA
Sbjct: 107 TTAFASR------DPTATLNPHNTGHSPGGASSGSAAAVGAGMIPLALGTQTGGSVIRPA 160
Query: 165 ALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVEDALVVYAAINGPLPSQQPTVSL 224
A CG KP+F +P GV +W + VG+ A ED A+ G
Sbjct: 161 AYCGTAAIKPSFRMLPTVGVKCYSWALDTVGLFGARAEDLARGLLAMTG----------- 209
Query: 225 PKVSFPLLKSATSISAIKLAKYDAWFND-CSDDIRVCCSRAVDKLCERYGWKVVEVTIPN 283
A ++ F A+ ER G V + +P
Sbjct: 210 ----RSEFSGIVPAKAPRIGVVRQEFAGAVEPAAEQGLQAAIKAA-ERAGASVQAIDLPE 264
Query: 284 -IEVMRLAHYLTIGSECSTSLSSYLQKINCSDQGWDARVALSVYGSF--SSQEYIKAQKI 340
+ H + E +L+ + + S+ + + +EY +A++I
Sbjct: 265 AVHEAWRIHPIIQDFEAHRALAWEFSE---HHDEIAPMLRASLDATVGLTPKEYDEARRI 321
Query: 341 RNHQMQIHRNVFAKADVIVVPTTGVTAYEIKDDALKTGELDYIYGAALVRYQIAGNFLGL 400
+ VF DV++ + TA TG+ RY +G
Sbjct: 322 GRRGRRELGEVFEGVDVLLTYSAPGTAPAKALA--STGD---------PRYNRLWTLMGN 370
Query: 401 PAVTVPVGYDTAGLPIGLQFIGKPWSEPTLMHIAFAMQALC 441
P V VPV GLPIG+Q I + ++ + A+ ++
Sbjct: 371 PCVNVPVL-KVGGLPIGVQVIARFGNDAHALATAWFLEDAL 410
>1m22_A Peptide amidase, PAM; eleven-stranded beta sheet, covered double
layers of alpha helices on TOP and bottom, hydrolase;
HET: EPE; 1.40A {Stenotrophomonas maltophilia} SCOP:
c.117.1.1 PDB: 1m21_A*
Length = 503
Score = 279 bits (716), Expect = 4e-89
Identities = 133/460 (28%), Positives = 192/460 (41%), Gaps = 55/460 (11%)
Query: 23 FINYNEEDILKQATESTLRYKKGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPC 82
I N D LK+A E + G L G+ + +KD I+ +P T+ G+ L RP
Sbjct: 51 VIELNP-DALKEAAERDRERRDGRLRGPLHGIPLLLKDNINAAPMATSAGSLALQGFRP- 108
Query: 83 TGDACCVMRLRLCGAILVGKTNMHELGAG-----TSGINPHYGVARNPYDPSKITGGSSS 137
DA V RLR GA+++GKTN+ E SG + G RNPY S GSSS
Sbjct: 109 -DDAYLVRRLRDAGAVVLGKTNLSEWANFRGNDSISGWSARGGQTRNPYRISHSPCGSSS 167
Query: 138 GSAAVVAAGLCPVALGVDGGGSVRMPAALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGIL 197
GSA VAA L VA+G + GS+ PAA+ GVVG KPT G + G++P++++ G +
Sbjct: 168 GSAVAVAANLASVAIGTETDGSIVCPAAINGVVGLKPTVGLVSRDGIIPISFSQDTAGPM 227
Query: 198 AATVEDALVVYAAINGPLPSQQPTVSLPKVSFPLLKSATSISAIKLAK---YDAWFNDCS 254
A +V DA V AI G + T ++P + + ++ +
Sbjct: 228 ARSVADAAAVLTAIAGRDDADPATATMPGRAVYDYTARLDPQGLRGKRIGLLQTPLLK-Y 286
Query: 255 DDIRVCCSRAVDKLCERYGWKVVEVTIPNIEVMRLAHYLTIGSECSTSLSSYLQK----- 309
+ +A +L R G VV V +PN A + E L Y
Sbjct: 287 RGMPPLIEQAATEL-RRAGAVVVPVELPNQGAWAEAERTLLLYEFKAGLERYFNTHRAPL 345
Query: 310 ------INCSDQGWDARV-----------ALSVYGSFSSQEYIKAQKIRNHQMQIHRNVF 352
I + + + + YI+A+
Sbjct: 346 RSLADLIAFNQAHSKQELGLFGQELLVEADAT--AGLADPAYIRARSDARRLAGPEGIDA 403
Query: 353 AKA----DVIVVPTTGVTAYEIKDDALKTGELDYIYGAALVRYQIAGNFLGLPAVTVPVG 408
A A D +V PTTGV E D G + Y A G P++TVP+G
Sbjct: 404 ALAAHQLDALVAPTTGVAWP-------IRSEGDDFPGES---YSAA-AVAGYPSLTVPMG 452
Query: 409 YDTAGLPIGLQFIGKPWSEPTLMHIAFAMQALCISEFRKP 448
GLP+GL F+G WSEP L+ +A+A + + R+P
Sbjct: 453 Q-IDGLPVGLLFMGTAWSEPKLIEMAYAYEQR--TRARRP 489
>3a2q_A 6-aminohexanoate-cyclic-dimer hydrolase; alpha/beta fold, nylon
degradation; 1.80A {Arthrobacter SP} PDB: 3a2p_A
Length = 493
Score = 272 bits (699), Expect = 1e-86
Identities = 92/417 (22%), Positives = 159/417 (38%), Gaps = 24/417 (5%)
Query: 45 GEPISVLDGVLIAVKDEIDCSP-YPTTGGTKWL-HKVRPCTGDACCVMRLRLCGAILVGK 102
GV +KD S T K + DA V R+R G +L+GK
Sbjct: 58 ELASGPFAGVPYLLKDLTVVSQGDINTSSIKGMKESGYRADHDAYFVQRMRAAGFVLLGK 117
Query: 103 TNMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGLCPVALGVDGGGSVRM 162
TN E+G + +G RNP++ + GGSS GS A VAA L PVA G D G+VR+
Sbjct: 118 TNTPEMGNQVTTEPEAWGATRNPWNLGRSVGGSSGGSGAAVAAALSPVAHGNDAAGAVRI 177
Query: 163 PAALCGVVGFKPTFGRIPLSGVLPLNWTVGM---VGILAATVEDALVVYAAINGPLPSQQ 219
PA++CGVVG KPT GRI ++ + V G+ A +V D + ++G P
Sbjct: 178 PASVCGVVGLKPTRGRISPGPLVTDSDNVAGAAHEGLFARSVRDIAALLDVVSGHRPGDT 237
Query: 220 PTVSLPKVSFPLLKSATSISAIKLA---KYDAWFNDCSDDIRVCCSRAVDKLCERYGWKV 276
+ + + ++++ + A G V
Sbjct: 238 FCAPTASRPY-AQGISENPGSLRVGVLTHNPVGDFALDPECAAAARGAA-AALAALGHDV 295
Query: 277 VEVTIPNIEVMRL--AHYLTIGSECSTSLSSYLQKINC----SDQGWDARVALSVYGSFS 330
+ + + + + + I D W + + +
Sbjct: 296 NDAYPEALGDRSFLKDYSTICDVAIAREIERNGELIGRPLTEDDVEWTSWEMVKRADQVT 355
Query: 331 SQEYIKAQKIRNHQMQIHRNVFAKA-DVIVVPTTGVTAYEIKDDALKTG-ELDYIYGAAL 388
+ + + + D++++PT EI + L G +L+ A +
Sbjct: 356 GRAFAACVDELRYYAGKVERWWEAGWDLLILPTVTRQTPEIGELMLAKGTDLEGRQSAFI 415
Query: 389 ------VRYQIAGNFLGLPAVTVPVGYDTAGLPIGLQFIGKPWSEPTLMHIAFAMQA 439
+ + + N G PA+++P+G + G+PIG+Q + E L+ +A ++
Sbjct: 416 SGSLQMLAFTVPFNVSGQPAISLPIGMSSDGMPIGVQIVAAYGREDLLLQVAAQLEG 472
>3ip4_A Glutamyl-tRNA(Gln) amidotransferase subunit A; multi protein
complex, ligase, ATP-binding, nucleotide-bindi protein
biosynthesis; 1.90A {Staphylococcus aureus subsp} PDB:
2df4_A 2dqn_A* 2g5h_A 2g5i_A* 2f2a_A
Length = 485
Score = 262 bits (673), Expect = 6e-83
Identities = 141/449 (31%), Positives = 214/449 (47%), Gaps = 49/449 (10%)
Query: 23 FINYNEEDILKQATESTLRYKKGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPC 82
F+ ++E+ +K+A E K + L G+ + +KD I + TT +K L P
Sbjct: 43 FLALDKENAIKKAQELDELQAKDQMDGKLFGIPMGIKDNIITNGLETTCASKMLEGFVP- 101
Query: 83 TGDACCVMRLRLCGAILVGKTNMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAV 142
++ + +L A+L+GK NM E G S ++ NP+D + GGSS GSAA
Sbjct: 102 IYESTVMEKLHKENAVLIGKLNMDEFAMGGSTETSYFKKTVNPFDHKAVPGGSSGGSAAA 161
Query: 143 VAAGLCPVALGVDGGGSVRMPAALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVE 202
VAAGL P++LG D GGS+R PAA CGVVG KPT+GR+ G++ ++ +G L V+
Sbjct: 162 VAAGLVPLSLGSDTGGSIRQPAAYCGVVGMKPTYGRVSRFGLVAFASSLDQIGPLTRNVK 221
Query: 203 DALVVYAAINGPLPSQQPTVSLPKVSFPLLKSAT-SISAIKLAKYDAWFND-CSDDIRVC 260
D +V AI+G + + + V F I +K+A + + +DD++
Sbjct: 222 DNAIVLEAISGADVNDSTSAPVDDVDF--TSEIGKDIKGLKVALPKEYLGEGVADDVKEA 279
Query: 261 CSRAVDKLCERYGWKVVEVTIPNIEVMRLAHYLTIGSECSTSLSSY------LQKINCSD 314
AV+ L + G V EV++PN + ++Y+ SE S++LS +
Sbjct: 280 VQNAVETL-KSLGAVVEEVSLPNTKFGIPSYYVIASSEASSNLSRFDGIRYGYHSKEAHS 338
Query: 315 ----------QGWDARV---------ALSV--YGSFSSQEYIKAQKIRNHQMQIHRNVFA 353
+G+ V ALS Y ++ Y K+QK+R VF
Sbjct: 339 LEELYKMSRSEGFGKEVKRRIFLGTFALSSGYYDAY----YKKSQKVRTLIKNDFDKVFE 394
Query: 354 KADVIVVPTTGVTAYEI---KDDALKTGELDYIYGAALVRYQIAGNFLGLPAVTVPVGYD 410
DV+V PT TA+ + DD L +Y L N GLP ++VP G
Sbjct: 395 NYDVVVGPTAPTTAFNLGEEIDDPLT------MYANDL--LTTPVNLAGLPGISVPCG-Q 445
Query: 411 TAGLPIGLQFIGKPWSEPTLMHIAFAMQA 439
+ G PIGLQFIGKP+ E TL +A+ +
Sbjct: 446 SNGRPIGLQFIGKPFDEKTLYRVAYQYET 474
>3a1k_A Amidase; AS family enzyme, hydrolase; 2.17A {Rhodococcus SP} PDB:
3a1i_A
Length = 521
Score = 257 bits (658), Expect = 2e-80
Identities = 112/459 (24%), Positives = 177/459 (38%), Gaps = 51/459 (11%)
Query: 23 FINYNEEDILKQATESTL------RYKKGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWL 76
+ E + A+E+ L VL G +A+KD + + P G++ +
Sbjct: 54 PPTTSREHAVPSASENPLSAWYVTTSIPPTSDGVLTGRRVAIKDNVTVAGVPMMNGSRTV 113
Query: 77 HKVRPCTGDACCVMRLRLCGAILVGKTNMHELGAGTSGINPHYGVARNPYDPSKITGGSS 136
P DA V RL GA + GK +L S P G RNP+D + GGSS
Sbjct: 114 EGFTPSR-DATVVTRLLAAGATVAGKAVCEDLCFSGSSFTPASGPVRNPWDRQREAGGSS 172
Query: 137 SGSAAVVAAGLCPVALGVDGGGSVRMPAALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGI 196
GSAA+VA G A+G D GGS+R+PAA CGVVG KPTFG +P +G P+ T+ +G
Sbjct: 173 GGSAALVANGDVDFAIGGDQGGSIRIPAAFCGVVGHKPTFGLVPYTGAFPIERTIDHLGP 232
Query: 197 LAATVEDALVVYAAINGPLPSQQPTVSLPKVSFPLLKSA--TSISAIKLAKYDAWFND-- 252
+ TV DA ++ + I G P V S + + +++ F
Sbjct: 233 ITRTVHDAALMLSVIAGRDG-NDPR-QADSVEAGDYLSTLDSDVDGLRIGIVREGFGHAV 290
Query: 253 CSDDIRVCCSRAVDKLCERYGWKVVEVTIPNIEVMRLAHYLTIGSECSTSL--------- 303
++ A L G V EV IP + + +
Sbjct: 291 SQPEVDDAVRAAAHSL-TEIGCTVEEVNIPWHLHAFHIWNVIATDGGAYQMLDGNGYGMN 349
Query: 304 ----------SSYLQKINCSDQGWDARV---------ALSVYGSFSSQEYIKAQKIRNHQ 344
+ + + V ++ G Y KA+ +
Sbjct: 350 AEGLYDPELMAHFASRRIQHADALSETVKLVALTGHHGITTLG---GASYGKARNLVPLA 406
Query: 345 MQIHRNVFAKADVIVVPTTGVTAYEIKDDALKTGELDYIYGAAL--VRYQIAGNFLGLPA 402
+ + DV+V+PT A E+ K + AL + + G P+
Sbjct: 407 RAAYDTALRQFDVLVMPTLPYVASELPA---KDVDRATFITKALGMIANTAPFDVTGHPS 463
Query: 403 VTVPVGYDTAGLPIGLQFIGKPWSEPTLMHIAFAMQALC 441
++VP G GLP+G+ G+ + + T++ + A + L
Sbjct: 464 LSVPAGLV-NGLPVGMMITGRHFDDATVLRVGRAFEKLR 501
>3kfu_E Glutamyl-tRNA(Gln) amidotransferase subunit A; ASPRS, gatcab,
ATP-binding, aminoacyl-tRNA synthetase, ligas
nucleotide-binding, protein biosynthesis, ligase-RNA
comple; HET: H2U 5MU PSU; 3.00A {Thermus thermophilus}
Length = 471
Score = 250 bits (641), Expect = 2e-78
Identities = 129/444 (29%), Positives = 210/444 (47%), Gaps = 52/444 (11%)
Query: 23 FINYNEEDILKQATESTLRYKKGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPC 82
F++ NE +L++A + +P L G+++AVKD I TT G++ L P
Sbjct: 38 FLSLNER-LLEEA-------EAVDPGLPLAGLVVAVKDNIATRGLRTTAGSRLLENFVP- 88
Query: 83 TGDACCVMRLRLCGAILVGKTNMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAV 142
+A V RL+ GA+++GKTN+ E G G+S + + +NP+DP ++ GGSS GSAA
Sbjct: 89 PYEATAVARLKALGALVLGKTNLDEFGMGSSTEHSAFFPTKNPFDPDRVPGGSSGGSAAA 148
Query: 143 VAAGLCPVALGVDGGGSVRMPAALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVE 202
+AA L P+ALG D GGSVR PAA CGV G KPT+GR+ G++ ++ +G +A +V
Sbjct: 149 LAADLAPLALGSDTGGSVRQPAAFCGVYGLKPTYGRVSRFGLIAYASSLDQIGPMARSVR 208
Query: 203 DALVVYAAINGPLPSQQPTVSLPKVSFPLLKSATSISAIKLAKYDAWFNDCSDDIRVCCS 262
D ++ A GP P ++ LP L+ + ++L S +
Sbjct: 209 DLALLMDAAAGPDPLDATSLDLPPRFQEALEG--PLPPLRLGVVREALAGNSPGVERALE 266
Query: 263 RAVDKLCERYGWKVVEVTIPNIEVMRLAHYLTIGSECSTSLSSY--------------LQ 308
A+ G V EV+ P++ A+Y+ +E S++L+ Y
Sbjct: 267 EALKVF-RELGLSVREVSWPSLPQALAAYYILAPAEASSNLARYDGTLYGRRAAGEEVEG 325
Query: 309 KINCSDQGWDARV---------ALSV--YGSFSSQEYIKAQKIRNHQMQIHRNVFAKADV 357
+ + + V LS Y ++ Y +AQ R + +F + D+
Sbjct: 326 MMEATRALFGLEVKRRVLVGTFVLSSGYYEAY----YGRAQAFRRRLKAEAQALFREVDL 381
Query: 358 IVVPTTGVTAYEI--KDDALKTGELDYIYGAALVRYQIAGNFLGLPAVTVPVGYDTAGLP 415
+++PTT A+ + D L +Y L Y + N GLPA++ P G++ LP
Sbjct: 382 LLLPTTPHPAFPFGARRDPLA------MYREDL--YTVGANLTGLPALSFPAGFE-GHLP 432
Query: 416 IGLQFIGKPWSEPTLMHIAFAMQA 439
+GLQ + + L+ A A +
Sbjct: 433 VGLQLLAPWGEDERLLRAALAFEE 456
>3h0l_A Glutamyl-tRNA(Gln) amidotransferase subunit A; multi protein
complex, ligase, protein biosynthesis; HET: ADP; 2.30A
{Aquifex aeolicus} PDB: 3h0m_A 3h0r_A*
Length = 478
Score = 250 bits (641), Expect = 2e-78
Identities = 127/449 (28%), Positives = 209/449 (46%), Gaps = 55/449 (12%)
Query: 23 FINYNEEDILKQATESTLRYKKGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPC 82
+I LKQA E L G+ IAVKD I TT +K L
Sbjct: 42 YITPLYGKALKQAESL------KERELPLFGIPIAVKDNILVEGEKTTCASKILENFVA- 94
Query: 83 TGDACCVMRLRLCGAILVGKTNMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAV 142
DA + RL+ GA++VGKTN+ E G+S + +NP+D ++ GGSS GSAA
Sbjct: 95 PYDATVIERLKKAGALIVGKTNLDEFAMGSSTEYSAFFPTKNPWDLERVPGGSSGGSAAS 154
Query: 143 VAAGLCPVALGVDGGGSVRMPAALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVE 202
VA PV+LG D GGS+R PA+ CGV+G KPT+GR+ G++ ++ +G+ E
Sbjct: 155 VAVLSAPVSLGSDTGGSIRQPASFCGVIGIKPTYGRVSRYGLVAFASSLDQIGVFGRRTE 214
Query: 203 DALVVYAAINGPLPSQQPTVSLPKVSFPLLKSAT-SISAIKLAKYDAWFND-CSDDIRVC 260
D +V I+G + +P + + + +K+ +F ++
Sbjct: 215 DVALVLEVISGWDEKDSTSAKVPVPEW--SEEVKKEVKGLKIGLPKEFFEYELQPQVKEA 272
Query: 261 CSRAVDKLCERYGWKVVEVTIPNIEVMRLAHYLTIGSECSTSLSSY------LQKINCSD 314
+ +L E+ G+++ EV++P+++ +Y+ SE S++L+ Y + D
Sbjct: 273 FENFIKEL-EKEGFEIKEVSLPHVKYSIPTYYIIAPSEASSNLARYDGVRYGYRAKEYKD 331
Query: 315 ----------QGWDARV---------ALSV--YGSFSSQEYIKAQKIRNHQMQIHRNVFA 353
+G+ V ALS Y ++ Y+KAQK+R F
Sbjct: 332 IFEMYARTRDEGFGPEVKRRIMLGTFALSAGYYDAY----YLKAQKVRRLITNDFLKAFE 387
Query: 354 KADVIVVPTTGVTAYEI---KDDALKTGELDYIYGAALVRYQIAGNFLGLPAVTVPVGYD 410
+ DVI PTT ++ ++ ++ +Y + + + N GLPA+++P+ +
Sbjct: 388 EVDVIASPTTPTLPFKFGERLENPIE------MYLSDI--LTVPANLAGLPAISIPIAWK 439
Query: 411 TAGLPIGLQFIGKPWSEPTLMHIAFAMQA 439
GLP+G Q IGK W E TL+ I++ +
Sbjct: 440 -DGLPVGGQLIGKHWDETTLLQISYLWEQ 467
>2gi3_A Glutamyl-tRNA(Gln) amidotransferase subunit A; TM1272, structural
genomics, joint center for structura genomics, JCSG;
HET: MSE MPD; 1.80A {Thermotoga maritima} SCOP:
c.117.1.1 PDB: 3al0_A*
Length = 476
Score = 246 bits (630), Expect = 1e-76
Identities = 128/449 (28%), Positives = 209/449 (46%), Gaps = 65/449 (14%)
Query: 23 FINYNEEDILKQATESTLRYKKGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPC 82
FI+ E +++ G+ +A+KD I TT ++ L
Sbjct: 44 FISVRENVSVEKK-------------GKFWGIPVAIKDNILTLGMRTTCASRILENYES- 89
Query: 83 TGDACCVMRLRLCGAILVGKTNMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAV 142
DA V +++ G ++VGK N+ E G+S + RNP+D ++ GGSS GSAA
Sbjct: 90 VFDATVVKKMKEAGFVVVGKANLDEFAMGSSTERSAFFPTRNPWDLERVPGGSSGGSAAA 149
Query: 143 VAAGLCPVALGVDGGGSVRMPAALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVE 202
V+AG+ ALG D GGSVR PA+LCGVVG+KPT+G + G++ ++ +G + TV
Sbjct: 150 VSAGMVVAALGSDTGGSVRQPASLCGVVGYKPTYGLVSRYGLVAFASSLDQIGPITKTVR 209
Query: 203 DALVVYAAING--PLPSQQPTVSLPKVSFPLLKSAT-SISAIKLAKYDAWFND-CSDDIR 258
DA ++ I+G + T KV F L +S +K A + + + +
Sbjct: 210 DAAILMEIISGRDENDA---TTVNRKVDF--LSEIEEGVSGMKFAVPEEIYEHDIEEGVS 264
Query: 259 VCCSRAVDKLCERYGWKVVEVTIPNIEVMRLAHYLTIGSECSTSLSSY--------LQKI 310
A+ L ER G KV V IP+I+ +Y+ +E S++L+ + +++
Sbjct: 265 ERFEEALKLL-ERLGAKVERVKIPHIKYSVATYYVIAPAEASSNLARFDGVKYGLRIKEK 323
Query: 311 NCSD-------QGWDARV---------ALSV--YGSFSSQEYIKAQKIRNHQMQIHRNVF 352
+ G+ V LS Y ++ + KA K+R V
Sbjct: 324 GLREMYMKTRNVGFGEEVRRRIMIGTFTLSAAYYEAY----FNKAMKVRRKISDELNEVL 379
Query: 353 AKADVIVVPTTGVTAYEI--KDDALKTGELDYIYGAALVRYQIAGNFLGLPAVTVPVGYD 410
++ D I+ PT+ VTA++I D L Y + + I N GLPA++VP G+
Sbjct: 380 SQYDAILTPTSPVTAFKIGEIKDPLT------YYLMDI--FTIPANLAGLPAISVPFGFS 431
Query: 411 TAGLPIGLQFIGKPWSEPTLMHIAFAMQA 439
LP+G+Q IG+ +++ + IA A++
Sbjct: 432 -NNLPVGVQVIGRRFADGKVFRIARAIEK 459
>3ppm_A Fatty-acid amide hydrolase 1; protein-inhibitor complex, FAAH,
oxazole, oxadiazole, endoca degradation, membrane
protein; HET: JG1 1DO; 1.78A {Rattus norvegicus} PDB:
2wj2_A* 3k7f_A* 3k83_A* 3k84_A* 3lj6_A* 3lj7_A 3oj8_A*
2wj1_A* 3pr0_A* 2wap_A* 1mt5_A* 2vya_A* 3qk5_A* 3qj8_A*
3qj9_A* 3qkv_A*
Length = 573
Score = 216 bits (552), Expect = 2e-64
Identities = 99/476 (20%), Positives = 165/476 (34%), Gaps = 81/476 (17%)
Query: 37 ESTLRYKKGEPISVLDGVLIAVKDEIDCSPYPTTGG-TKWLHKVRPCTGDACCVMRLRLC 95
+ + + +L GV +++K+ + +T G + P D V L+L
Sbjct: 114 DCETQLSQAPRQGLLYGVPVSLKECFSYKGHDSTLGLSLNEGM--PSESDCVVVQVLKLQ 171
Query: 96 GAILVGKTNMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGLCPVALGVD 155
GA+ TN+ + NP +G NP+ SK GGSS G A++ +G P+ LG D
Sbjct: 172 GAVPFVHTNVPQSMFSYDCSNPLFGQTMNPWKSSKSPGGSSGGEGALIGSGGSPLGLGTD 231
Query: 156 GGGSVRMPAALCGVVGFKPTFGRIPLSGVLP----LNWTVGMVGILAATVEDALVVYAAI 211
GGS+R P+A CG+ G KPT R+ SG+ +G +A VE + A+
Sbjct: 232 IGGSIRFPSAFCGICGLKPTGNRLSKSGLKGCVYGQTAVQLSLGPMARDVESLALCLKAL 291
Query: 212 NGPLPSQQPTVSLPKVSFPLLKSAT-SISAIKLAKY-DAWFNDCSDDIRVCCSRAVDKLC 269
P P + S +++ Y + S +R +L
Sbjct: 292 LCEHLFTLDPTVPP---LPFREEVYRSSRPLRVGYYETDNYTMPSPAMRRALIETKQRL- 347
Query: 270 ERYGWKVVEVTIPN----IEVMRLAHYLTIG---------SECSTSLSSYLQKINCSDQG 316
E G ++ N +EV+ + G + L I
Sbjct: 348 EAAGHTLIPFLPNNIPYALEVLSTGGLFSDGGRSFLQNFKGDFVDPCLGDLILILRLPSW 407
Query: 317 WDARVALSV-------------YGSFSSQEYIKAQKIRNHQMQIHRNVFAKA--DVIVVP 361
+ ++L + S+++ K Q Q + DV++ P
Sbjct: 408 FKRLLSLLLKPLFPRLAAFLNNMRPRSAEKLWKLQHEIEMYRQSVIAQWKAMNLDVLLTP 467
Query: 362 TTGVTAYEIKDDALKTGELDYIYGAALVRYQIAGNFLGLPAVTVPVGY------------ 409
G AL GA V Y + N L PA VPV
Sbjct: 468 MLGP--------ALDLNTPGRATGA--VSYTMLYNCLDFPAGVVPVTTVTAEDDAQMELY 517
Query: 410 -----------------DTAGLPIGLQFIGKPWSEPTLMHIAFAMQALCISEFRKP 448
++ GLP+ +Q + PW E + ++ L ++ ++P
Sbjct: 518 KGYFGDIWDIILKKAMKNSVGLPVAVQCVALPWQEELCLRFMREVEQL-MTPQKQP 572
>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 = 53.9 bits (129), Expect = 8e-08
Identities = 89/508 (17%), Positives = 140/508 (27%), Gaps = 173/508 (34%)
Query: 21 SFFINYNE--EDILKQATESTLRYKKG-EPISVLDGVLIA-----VKDEIDCSPYPTTGG 72
+ F ++ E K E T + EP + + L+ V ++ S
Sbjct: 25 ASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAE--LVGKFLGYVSSLVEPSK------ 76
Query: 73 TKWLHKVRPCTGDACCVMRLRLCG---AILVGKTNMHELGAGTSGINP-----HYGVARN 124
G V+ L L L G ++H L A N + +N
Sbjct: 77 ----------VGQFDQVLNLCLTEFENCYLEGN-DIHALAAKLLQENDTTLVKTKELIKN 125
Query: 125 PYDPSKITGGSSSGSAAVVAAGLCPVALGVDGGGSVRMPAALCGVVGFKPTFGRIPLSGV 184
Y ++I + AL A G FG
Sbjct: 126 -YITARIMAKRPFDKKS-------NSAL---------FRAVGEGNAQLVAIFG------- 161
Query: 185 LPLNWTVGMVGILAATVEDALV----VYAAINGPLPSQQPTVSLPKVSFPLLKSATSISA 240
G G E+ L Y + G L + L+++
Sbjct: 162 -------GQ-GNTDDYFEE-LRDLYQTYHVLVGDL-----IKFSAETLSELIRTTLDAEK 207
Query: 241 IKLAKYD--AWFNDCSDDIRVCCSRAVDKLCERYGWKVVEVTIPNIEVMRLAHYLTIGSE 298
+ + W + S+ + D L + ++ P I V++LAHY+
Sbjct: 208 VFTQGLNILEWLENPSN------TPDKDYLLS------IPISCPLIGVIQLAHYVVT--- 252
Query: 299 CSTS------LSSYLQKINCSDQGWDARVALSVYGSFSS--QEYIKAQKI------RNHQ 344
L SYL+ QG VA++ S+ S KA + R ++
Sbjct: 253 AKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYE 312
Query: 345 MQIHRNVFAKADVIVVPTTGVTAYEIKDDALKTGELDYIYGAA---LVRYQIAGNFLGLP 401
P T + I +D+L+ E G L I+ L
Sbjct: 313 --------------AYPNTSLPP-SILEDSLENNE-----GVPSPMLS---ISN--LTQE 347
Query: 402 AVTVPVGYDTAGLP------IGL-----QFI--GKPWSEPTLMHIAFAMQALCIS----- 443
V V + LP I L + G P S L + ++
Sbjct: 348 QVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQS---LYGLNLTLRKAKAPSGLDQ 404
Query: 444 ---EF--RKPKV----------FH-DLL 455
F RK K FH LL
Sbjct: 405 SRIPFSERKLKFSNRFLPVASPFHSHLL 432
Score = 52.0 bits (124), Expect = 3e-07
Identities = 66/413 (15%), Positives = 116/413 (28%), Gaps = 141/413 (34%)
Query: 27 NEEDILKQATESTLR--YKKGEP-----ISVLDGVLIA-VKDEIDCSPYPTTGG--TKWL 76
N +D + E LR Y+ I L ++ +D T G +WL
Sbjct: 165 NTDDYFE---E--LRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 77 HK--VRPCTGDACCVMRLRLCGAI---LVGKTNMHELGAGTSGINPHYGVAR-----NPY 126
P + I L+G + HY V P
Sbjct: 220 ENPSNTPDKDYLLSI-------PISCPLIGVIQL-----------AHYVVTAKLLGFTPG 261
Query: 127 DPSKITGGSSSGSAAVVAAGLCPVALGVDG----GGSVRMPAAL--CGVVGFKPTFGRIP 180
+ G++ S +V A +A + L GV ++ +
Sbjct: 262 ELRSYLKGATGHSQGLVTAVA--IAETDSWESFFVSVRKAITVLFFIGVRCYE-AYPNTS 318
Query: 181 LS-GVLPLNWTVG------MV---GILAATVEDAL-----------VVYAA-INGP---- 214
L +L + M+ + V+D + V + +NG
Sbjct: 319 LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV 378
Query: 215 -------L---------------------P-SQ-QPTVS---LPKVS--F--PLLKSATS 237
L P S+ + S LP V+ F LL A+
Sbjct: 379 VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP-VASPFHSHLLVPASD 437
Query: 238 ISAIKLAKYDAWFN---------DCSD--DIRVCCSRAVDKLCERYGWKVVEVTI--PNI 284
+ L K + FN D D D+RV +++ + ++ + +
Sbjct: 438 LINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVD----CIIRLPVKWETT 493
Query: 285 EVMRLAHYLTIGSECSTSLSSYLQKINCSDQGWDARVALSVYGSFSSQ---EY 334
+ H L G ++ L + G RV ++ G+ +Y
Sbjct: 494 TQFKATHILDFGPGGASGLGVLTHRNK---DGTGVRVIVA--GTLDINPDDDY 541
Score = 40.4 bits (94), Expect = 0.001
Identities = 33/192 (17%), Positives = 62/192 (32%), Gaps = 85/192 (44%)
Query: 164 AALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVEDAL-VVYA---AINGPLPSQQ 219
AAL + + V+ + E + VV+ + +P +
Sbjct: 1768 AALASL------------ADVMSI--------------ESLVEVVFYRGMTMQVAVPRDE 1801
Query: 220 PTVSLPKVSFPLLKSATSISAIKLAKYDAWFNDCSDDIRVCCSRAVDKLCERYGWKVVEV 279
L +S + AI + A F+ + ++ +++ +R GW +VE+
Sbjct: 1802 -----------LGRSNYGMIAINPGRVAASFSQ--EALQYVV----ERVGKRTGW-LVEI 1843
Query: 280 TIPNIEVMRLAHYLTIGSECSTSLSSYLQKINCSDQ-----GWDARVALSVYGSFSSQEY 334
+Y N +Q G D R AL + + +
Sbjct: 1844 ----------VNY------------------NVENQQYVAAG-DLR-ALDTVTNVLN--F 1871
Query: 335 IKAQKIRNHQMQ 346
IK QKI ++Q
Sbjct: 1872 IKLQKIDIIELQ 1883
Score = 28.9 bits (64), Expect = 5.0
Identities = 20/109 (18%), Positives = 36/109 (33%), Gaps = 23/109 (21%)
Query: 349 RNVFAKADVIVVPTTGVTAYEIKDDALKTGELDYIYGAALVRYQIAGNFLGLPAVTVPVG 408
++V+ +AD T G + +I + L +G + +I N+ +
Sbjct: 1643 QDVWNRADNHFKDTYGFSILDIVINNPV--NLTIHFGGEKGK-RIRENYSAMI------- 1692
Query: 409 YDTAGLPIGLQFIGKPWSEPTLMHIAFAMQALCISEFRKPKVFHDLLYK 457
++T GK +E I + FR K LL
Sbjct: 1693 FETIV-------DGKLKTEKIFKEINEHSTSYT---FRSEK---GLLSA 1728
>1fiu_A Type II restriction enzyme ngomi; protein-DNA complex, double
helix, restriction endonuclease, restriction-modifiction
systems, hydrolase; HET: DNA; 1.60A {Neisseria
gonorrhoeae} SCOP: c.52.1.10 PDB: 4abt_A
Length = 286
Score = 30.9 bits (69), Expect = 0.71
Identities = 21/64 (32%), Positives = 29/64 (45%)
Query: 336 KAQKIRNHQMQIHRNVFAKADVIVVPTTGVTAYEIKDDALKTGELDYIYGAALVRYQIAG 395
+AQ R+ + + RN + IVV T T I AL TGE+D +Y AL +
Sbjct: 194 RAQNARSEGLNLVRNRKGRLPHIVVVTAEPTPSRISSIALGTGEIDCVYHFALYELEQIL 253
Query: 396 NFLG 399
L
Sbjct: 254 QSLN 257
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 27.6 bits (60), Expect = 5.0
Identities = 4/24 (16%), Positives = 11/24 (45%), Gaps = 6/24 (25%)
Query: 201 VEDALVVYAAINGPLPSQQPTVSL 224
++ +L +YA P +++
Sbjct: 25 LQASLKLYA------DDSAPALAI 42
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
0.320 0.136 0.418
Gapped
Lambda K H
0.267 0.0646 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,352,181
Number of extensions: 467877
Number of successful extensions: 1042
Number of sequences better than 10.0: 1
Number of HSP's gapped: 989
Number of HSP's successfully gapped: 28
Length of query: 458
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 361
Effective length of database: 3,993,456
Effective search space: 1441637616
Effective search space used: 1441637616
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 59 (26.7 bits)