RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 010596
(506 letters)
>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 = 238 bits (609), Expect = 1e-73
Identities = 83/363 (22%), Positives = 141/363 (38%), Gaps = 46/363 (12%)
Query: 137 TVLDYSKAYSSGDITPRMVAERFIAAVRESSNPPMKMSFFINYNEEDILKQATESTLRYK 196
++ D + +G+++P + AA+ E+ + F+ +++
Sbjct: 3 SLADLQRRIETGELSPNAAIAQSHAAI-EAREKEVHA--FVRHDKS-------------A 46
Query: 197 KGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPCTGDACCVMRLRLCGAILVGKT 256
+ + L G+ + +KD ID + PT G++ +P DA VM L+ GA ++GKT
Sbjct: 47 RAQASGPLRGIAVGIKDIIDTANMPTEMGSEIYRGWQP-RSDAPVVMMLKRAGATIIGKT 105
Query: 257 NMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGLCPVALGVDGGGSVRMP 316
+ NP++ GG+SSGSAA V AG+ P+ALG GGSV P
Sbjct: 106 TTTAFASR------DPTATLNPHNTGHSPGGASSGSAAAVGAGMIPLALGTQTGGSVIRP 159
Query: 317 AALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVEDALVVYAAINGPLPSQQPTVS 376
AA CG KP+F +P GV +W + VG+ A ED A+ G
Sbjct: 160 AAYCGTAAIKPSFRMLPTVGVKCYSWALDTVGLFGARAEDLARGLLAMTG---------- 209
Query: 377 LPKVSFPLLKSATSISAIKLAKYDAWFND-CSDDIRVCCSRAVDKLCERYGWKVVEVTIP 435
A ++ F A+ ER G V + +P
Sbjct: 210 -----RSEFSGIVPAKAPRIGVVRQEFAGAVEPAAEQGLQAAIKAA-ERAGASVQAIDLP 263
Query: 436 N-IEVMRLAHYLTIGSECSTSLSSYLQKINCSDQGWDARVALSVYGSF--SSQEYIKAQK 492
+ H + E +L+ + + S+ + + +EY +A++
Sbjct: 264 EAVHEAWRIHPIIQDFEAHRALAWEFSE---HHDEIAPMLRASLDATVGLTPKEYDEARR 320
Query: 493 IRK 495
I +
Sbjct: 321 IGR 323
>2dc0_A Probable amidase; structural genomics, NPPSFA, national project on
protein structural and functional analyses; 2.00A
{Thermus thermophilus}
Length = 434
Score = 233 bits (596), Expect = 2e-71
Identities = 99/327 (30%), Positives = 142/327 (43%), Gaps = 41/327 (12%)
Query: 137 TVLDYSKAYSSGDITPRMVAERFIAAVRESSNPPMKMSFFINYNEEDILKQATESTLRYK 196
+L+ + +G TP + E + ++ + +EE K+A T +
Sbjct: 2 DLLEAKRLLETGRTTPLALLEEALERA-KAFQD---RNALAYLDEEAARKEALALTEELR 57
Query: 197 KGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPCTGDACCVMRLRLCGAILVGKT 256
+G+ L G+ + VKD PT GTK P +A V RLR GA+L KT
Sbjct: 58 RGQVRGPLHGLPLTVKDLFPVKGMPTRAGTKAPLPPLP--EEARAVRRLREAGALLFAKT 115
Query: 257 NMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGLCPVALGVDGGGSVRMP 316
NMHE+ G +G NP G RN DPS+ GGSS GSA VA G+ +LG D GGS+R+P
Sbjct: 116 NMHEIALGITGENPWTGPVRNAVDPSRQAGGSSGGSAVAVALGIGLASLGTDTGGSIRIP 175
Query: 317 AALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVEDALVVYAAINGPLPSQQP--- 373
A GVVGFKP++GR+ L G LPL+ + G L +V DA + + G +
Sbjct: 176 AGFNGVVGFKPSYGRVSLEGALPLSRSTDHAGPLTRSVRDAHFLTEILAGESIPLEGVQN 235
Query: 374 -TVSLPKVSFPLLKSATSISAIKLAKYDAWFNDCSDDIRVCCSRAVDKLCERYGWKVVEV 432
+P D ++R +R ++ L +V EV
Sbjct: 236 PVFGVPL--------------------DFLEGRLGVEVRKAFTRLLEDL-PALRAEVREV 274
Query: 433 TIPNIEVMRLAHYLTIGSECSTSLSSY 459
++P V E T L Y
Sbjct: 275 SLPLEGV----------YEVYTRLVRY 291
>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 = 228 bits (583), Expect = 6e-69
Identities = 99/343 (28%), Positives = 151/343 (44%), Gaps = 14/343 (4%)
Query: 127 SEKQPF-FHRWTVLDYSKAYSSGDITPRMVAERFIAAVRESSNPPMKMSFFINYNEEDIL 185
S PF + V D ++G++ + + ++ + ++ I N D L
Sbjct: 1 SRNVPFPYAETDVADLQARMTAGELDSTTLTQAYLQRIAALDRTGPRLRAVIELNP-DAL 59
Query: 186 KQATESTLRYKKGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPCTGDACCVMRL 245
K+A E + G L G+ + +KD I+ +P T+ G+ L RP DA V RL
Sbjct: 60 KEAAERDRERRDGRLRGPLHGIPLLLKDNINAAPMATSAGSLALQGFRP--DDAYLVRRL 117
Query: 246 RLCGAILVGKTNMHELGAG-----TSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGL 300
R GA+++GKTN+ E SG + G RNPY S GSSSGSA VAA L
Sbjct: 118 RDAGAVVLGKTNLSEWANFRGNDSISGWSARGGQTRNPYRISHSPCGSSSGSAVAVAANL 177
Query: 301 CPVALGVDGGGSVRMPAALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVEDALVV 360
VA+G + GS+ PAA+ GVVG KPT G + G++P++++ G +A +V DA V
Sbjct: 178 ASVAIGTETDGSIVCPAAINGVVGLKPTVGLVSRDGIIPISFSQDTAGPMARSVADAAAV 237
Query: 361 YAAINGPLPSQQPTVSLPKVSFPLLKSATSISAIKLAK---YDAWFNDCSDDIRVCCSRA 417
AI G + T ++P + + ++ + + +A
Sbjct: 238 LTAIAGRDDADPATATMPGRAVYDYTARLDPQGLRGKRIGLLQTPLLK-YRGMPPLIEQA 296
Query: 418 VDKLCERYGWKVVEVTIPNIEVMRLAHYLTIGSECSTSLSSYL 460
+L R G VV V +PN A + E L Y
Sbjct: 297 ATEL-RRAGAVVVPVELPNQGAWAEAERTLLLYEFKAGLERYF 338
>3a2q_A 6-aminohexanoate-cyclic-dimer hydrolase; alpha/beta fold, nylon
degradation; 1.80A {Arthrobacter SP} PDB: 3a2p_A
Length = 493
Score = 219 bits (561), Expect = 8e-66
Identities = 77/323 (23%), Positives = 124/323 (38%), Gaps = 24/323 (7%)
Query: 144 AYSSGDITPRMVAERFIAAVRESSNPPMKMSFFINYNEEDILKQATESTLRYKKGEPISV 203
SG+I+ + E IA V ++ NP +++ I E +++
Sbjct: 16 LVRSGEISRTELLEATIAHV-QAVNP--EINAVIIPLFEKARRES---------ELASGP 63
Query: 204 LDGVLIAVKDEIDCSP-YPTTGGTKWL-HKVRPCTGDACCVMRLRLCGAILVGKTNMHEL 261
GV +KD S T K + DA V R+R G +L+GKTN E+
Sbjct: 64 FAGVPYLLKDLTVVSQGDINTSSIKGMKESGYRADHDAYFVQRMRAAGFVLLGKTNTPEM 123
Query: 262 GAGTSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGLCPVALGVDGGGSVRMPAALCG 321
G + +G RNP++ + GGSS GS A VAA L PVA G D G+VR+PA++CG
Sbjct: 124 GNQVTTEPEAWGATRNPWNLGRSVGGSSGGSGAAVAAALSPVAHGNDAAGAVRIPASVCG 183
Query: 322 VVGFKPTFGRIPLSGVLPLNWTVGM---VGILAATVEDALVVYAAINGPLPSQQPTVSLP 378
VVG KPT GRI ++ + V G+ A +V D + ++G P
Sbjct: 184 VVGLKPTRGRISPGPLVTDSDNVAGAAHEGLFARSVRDIAALLDVVSGHRPGDTFCAPTA 243
Query: 379 KVSFPLLKSATSISAIKLA---KYDAWFNDCSDDIRVCCSRAVDKLCERYGWKVVEVTIP 435
+ + + ++++ + A G V +
Sbjct: 244 SRPY-AQGISENPGSLRVGVLTHNPVGDFALDPECAAAARGAA-AALAALGHDVNDAYPE 301
Query: 436 NIEVMRL--AHYLTIGSECSTSL 456
+ + + +
Sbjct: 302 ALGDRSFLKDYSTICDVAIAREI 324
>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 = 210 bits (536), Expect = 4e-62
Identities = 101/329 (30%), Positives = 164/329 (49%), Gaps = 9/329 (2%)
Query: 133 FHRWTVLDYSKAYSSGDITPRMVAERFIAAVRESSNPPMKMSFFINYNEEDILKQATEST 192
+V + I P V + A+ E ++P + F+ ++E+ +K+A E
Sbjct: 3 IRYESVENLLTLIKDKKIKPSDVVKDIYDAI-EETDP--TIKSFLALDKENAIKKAQELD 59
Query: 193 LRYKKGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPCTGDACCVMRLRLCGAIL 252
K + L G+ + +KD I + TT +K L P ++ + +L A+L
Sbjct: 60 ELQAKDQMDGKLFGIPMGIKDNIITNGLETTCASKMLEGFVP-IYESTVMEKLHKENAVL 118
Query: 253 VGKTNMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGLCPVALGVDGGGS 312
+GK NM E G S ++ NP+D + GGSS GSAA VAAGL P++LG D GGS
Sbjct: 119 IGKLNMDEFAMGGSTETSYFKKTVNPFDHKAVPGGSSGGSAAAVAAGLVPLSLGSDTGGS 178
Query: 313 VRMPAALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVEDALVVYAAINGPLPSQQ 372
+R PAA CGVVG KPT+GR+ G++ ++ +G L V+D +V AI+G +
Sbjct: 179 IRQPAAYCGVVGMKPTYGRVSRFGLVAFASSLDQIGPLTRNVKDNAIVLEAISGADVNDS 238
Query: 373 PTVSLPKVSFPLLKSAT-SISAIKLAKYDAWFND-CSDDIRVCCSRAVDKLCERYGWKVV 430
+ + V F I +K+A + + +DD++ AV+ L + G V
Sbjct: 239 TSAPVDDVDF--TSEIGKDIKGLKVALPKEYLGEGVADDVKEAVQNAVETL-KSLGAVVE 295
Query: 431 EVTIPNIEVMRLAHYLTIGSECSTSLSSY 459
EV++PN + ++Y+ SE S++LS +
Sbjct: 296 EVSLPNTKFGIPSYYVIASSEASSNLSRF 324
>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 = 196 bits (502), Expect = 2e-57
Identities = 93/329 (28%), Positives = 158/329 (48%), Gaps = 15/329 (4%)
Query: 133 FHRWTVLDYSKAYSSGDITPRMVAERFIAAVRESSNPPMKMSFFINYNEEDILKQATEST 192
+ ++ + + G+++P+ V E F + K+ +I LKQA
Sbjct: 2 LWKKSLSELRELLKRGEVSPKEVVESFYDRY-NQTEE--KVKAYITPLYGKALKQAESL- 57
Query: 193 LRYKKGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPCTGDACCVMRLRLCGAIL 252
E L G+ IAVKD I TT +K L DA + RL+ GA++
Sbjct: 58 -----KERELPLFGIPIAVKDNILVEGEKTTCASKILENFVA-PYDATVIERLKKAGALI 111
Query: 253 VGKTNMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGLCPVALGVDGGGS 312
VGKTN+ E G+S + +NP+D ++ GGSS GSAA VA PV+LG D GGS
Sbjct: 112 VGKTNLDEFAMGSSTEYSAFFPTKNPWDLERVPGGSSGGSAASVAVLSAPVSLGSDTGGS 171
Query: 313 VRMPAALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVEDALVVYAAINGPLPSQQ 372
+R PA+ CGV+G KPT+GR+ G++ ++ +G+ ED +V I+G
Sbjct: 172 IRQPASFCGVIGIKPTYGRVSRYGLVAFASSLDQIGVFGRRTEDVALVLEVISGWDEKDS 231
Query: 373 PTVSLPKVSFPLLKSAT-SISAIKLAKYDAWFND-CSDDIRVCCSRAVDKLCERYGWKVV 430
+ +P + + + +K+ +F ++ + +L E+ G+++
Sbjct: 232 TSAKVPVPEW--SEEVKKEVKGLKIGLPKEFFEYELQPQVKEAFENFIKEL-EKEGFEIK 288
Query: 431 EVTIPNIEVMRLAHYLTIGSECSTSLSSY 459
EV++P+++ +Y+ SE S++L+ Y
Sbjct: 289 EVSLPHVKYSIPTYYIIAPSEASSNLARY 317
>3a1k_A Amidase; AS family enzyme, hydrolase; 2.17A {Rhodococcus SP} PDB:
3a1i_A
Length = 521
Score = 196 bits (500), Expect = 8e-57
Identities = 85/291 (29%), Positives = 121/291 (41%), Gaps = 14/291 (4%)
Query: 176 FINYNEEDILKQATESTL------RYKKGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWL 229
+ E + A+E+ L VL G +A+KD + + P G++ +
Sbjct: 54 PPTTSREHAVPSASENPLSAWYVTTSIPPTSDGVLTGRRVAIKDNVTVAGVPMMNGSRTV 113
Query: 230 HKVRPCTGDACCVMRLRLCGAILVGKTNMHELGAGTSGINPHYGVARNPYDPSKITGGSS 289
P DA V RL GA + GK +L S P G RNP+D + GGSS
Sbjct: 114 EGFTPSR-DATVVTRLLAAGATVAGKAVCEDLCFSGSSFTPASGPVRNPWDRQREAGGSS 172
Query: 290 SGSAAVVAAGLCPVALGVDGGGSVRMPAALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGI 349
GSAA+VA G A+G D GGS+R+PAA CGVVG KPTFG +P +G P+ T+ +G
Sbjct: 173 GGSAALVANGDVDFAIGGDQGGSIRIPAAFCGVVGHKPTFGLVPYTGAFPIERTIDHLGP 232
Query: 350 LAATVEDALVVYAAINGPLPSQQPTVSLPKVSFPLLKSA--TSISAIKLAKYDAWFNDCS 407
+ TV DA ++ + I G P V S + + +++ F
Sbjct: 233 ITRTVHDAALMLSVIAGRDG-NDPR-QADSVEAGDYLSTLDSDVDGLRIGIVREGFGHAV 290
Query: 408 DDIRV--CCSRAVDKLCERYGWKVVEVTIPNIEVMRLAHYLTIGSECSTSL 456
V A L G V EV IP + + +
Sbjct: 291 SQPEVDDAVRAAAHSL-TEIGCTVEEVNIPWHLHAFHIWNVIATDGGAYQM 340
>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 = 194 bits (496), Expect = 1e-56
Identities = 101/323 (31%), Positives = 167/323 (51%), Gaps = 15/323 (4%)
Query: 137 TVLDYSKAYSSGDITPRMVAERFIAAVRESSNPPMKMSFFINYNEEDILKQATESTLRYK 196
+ + G+++P VA+ ++ V + +P + F++ NE +L++A +
Sbjct: 2 LAHEIRARVARGEVSPLEVAQAYLKRV-QELDP--GLGAFLSLNER-LLEEA-------E 50
Query: 197 KGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPCTGDACCVMRLRLCGAILVGKT 256
+P L G+++AVKD I TT G++ L P +A V RL+ GA+++GKT
Sbjct: 51 AVDPGLPLAGLVVAVKDNIATRGLRTTAGSRLLENFVP-PYEATAVARLKALGALVLGKT 109
Query: 257 NMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGLCPVALGVDGGGSVRMP 316
N+ E G G+S + + +NP+DP ++ GGSS GSAA +AA L P+ALG D GGSVR P
Sbjct: 110 NLDEFGMGSSTEHSAFFPTKNPFDPDRVPGGSSGGSAAALAADLAPLALGSDTGGSVRQP 169
Query: 317 AALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVEDALVVYAAINGPLPSQQPTVS 376
AA CGV G KPT+GR+ G++ ++ +G +A +V D ++ A GP P ++
Sbjct: 170 AAFCGVYGLKPTYGRVSRFGLIAYASSLDQIGPMARSVRDLALLMDAAAGPDPLDATSLD 229
Query: 377 LPKVSFPLLKSATSISAIKLAKYDAWFNDCSDDIRVCCSRAVDKLCERYGWKVVEVTIPN 436
LP L+ + ++L S + A+ G V EV+ P+
Sbjct: 230 LPPRFQEALEG--PLPPLRLGVVREALAGNSPGVERALEEALKVF-RELGLSVREVSWPS 286
Query: 437 IEVMRLAHYLTIGSECSTSLSSY 459
+ A+Y+ +E S++L+ Y
Sbjct: 287 LPQALAAYYILAPAEASSNLARY 309
>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 = 190 bits (484), Expect = 8e-55
Identities = 91/327 (27%), Positives = 152/327 (46%), Gaps = 27/327 (8%)
Query: 137 TVLDYSKAYSSGDITPRMVAERFIAAVRESSNPPMKMSFFINYNEEDILKQATESTLRYK 196
L + + + + + + + +P + FI+ E +++
Sbjct: 8 RKLTIEECLKLSEEEREKLPQLSLETI-KRLDP--HVKAFISVRENVSVEKK-------- 56
Query: 197 KGEPISVLDGVLIAVKDEIDCSPYPTTGGTKWLHKVRPCTGDACCVMRLRLCGAILVGKT 256
G+ +A+KD I TT ++ L DA V +++ G ++VGK
Sbjct: 57 -----GKFWGIPVAIKDNILTLGMRTTCASRILENYES-VFDATVVKKMKEAGFVVVGKA 110
Query: 257 NMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGLCPVALGVDGGGSVRMP 316
N+ E G+S + RNP+D ++ GGSS GSAA V+AG+ ALG D GGSVR P
Sbjct: 111 NLDEFAMGSSTERSAFFPTRNPWDLERVPGGSSGGSAAAVSAGMVVAALGSDTGGSVRQP 170
Query: 317 AALCGVVGFKPTFGRIPLSGVLPLNWTVGMVGILAATVEDALVVYAAING--PLPSQQPT 374
A+LCGVVG+KPT+G + G++ ++ +G + TV DA ++ I+G + T
Sbjct: 171 ASLCGVVGYKPTYGLVSRYGLVAFASSLDQIGPITKTVRDAAILMEIISGRDENDA---T 227
Query: 375 VSLPKVSFPLLKSAT-SISAIKLAKYDAWFND-CSDDIRVCCSRAVDKLCERYGWKVVEV 432
KV F L +S +K A + + + + A+ L ER G KV V
Sbjct: 228 TVNRKVDF--LSEIEEGVSGMKFAVPEEIYEHDIEEGVSERFEEALKLL-ERLGAKVERV 284
Query: 433 TIPNIEVMRLAHYLTIGSECSTSLSSY 459
IP+I+ +Y+ +E S++L+ +
Sbjct: 285 KIPHIKYSVATYYVIAPAEASSNLARF 311
>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 = 190 bits (484), Expect = 4e-54
Identities = 73/312 (23%), Positives = 120/312 (38%), Gaps = 24/312 (7%)
Query: 134 HRWTVLDYSKAYSSGDITPRMVAERFIAAVRESSNPPMKMSFFINYNEEDILKQATESTL 193
+L + SG+++P V ++ E N N + T+
Sbjct: 69 LTLPLLQLVQKLQSGELSPEAVFFTYLGKAWEV-NK------GTNC----VTSYLTDCET 117
Query: 194 RYKKGEPISVLDGVLIAVKDEIDCSPYPTTGG-TKWLHKVRPCTGDACCVMRLRLCGAIL 252
+ + +L GV +++K+ + +T G + P D V L+L GA+
Sbjct: 118 QLSQAPRQGLLYGVPVSLKECFSYKGHDSTLGLSLNEGM--PSESDCVVVQVLKLQGAVP 175
Query: 253 VGKTNMHELGAGTSGINPHYGVARNPYDPSKITGGSSSGSAAVVAAGLCPVALGVDGGGS 312
TN+ + NP +G NP+ SK GGSS G A++ +G P+ LG D GGS
Sbjct: 176 FVHTNVPQSMFSYDCSNPLFGQTMNPWKSSKSPGGSSGGEGALIGSGGSPLGLGTDIGGS 235
Query: 313 VRMPAALCGVVGFKPTFGRIPLSGVLP----LNWTVGMVGILAATVEDALVVYAAINGPL 368
+R P+A CG+ G KPT R+ SG+ +G +A VE + A+
Sbjct: 236 IRFPSAFCGICGLKPTGNRLSKSGLKGCVYGQTAVQLSLGPMARDVESLALCLKALLCEH 295
Query: 369 PSQQPTVSLPKVSFPLLKSAT-SISAIKLAKY-DAWFNDCSDDIRVCCSRAVDKLCERYG 426
P P + S +++ Y + S +R +L E G
Sbjct: 296 LFTLDPTVPP---LPFREEVYRSSRPLRVGYYETDNYTMPSPAMRRALIETKQRL-EAAG 351
Query: 427 WKVVEVTIPNIE 438
++ NI
Sbjct: 352 HTLIPFLPNNIP 363
>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 = 66.4 bits (161), Expect = 1e-11
Identities = 86/542 (15%), Positives = 148/542 (27%), Gaps = 162/542 (29%)
Query: 66 LKRNNLIHKFISYAELEDSPLYVPLHPYDSED-----LKEQEIKHIDSDLSPPEKVQQA- 119
+ +++ F A +++ D +D L ++EI HI + + V
Sbjct: 16 YQYKDILSVFED-AFVDN------FDCKDVQDMPKSILSKEEIDHI---IMSKDAVSGTL 65
Query: 120 --IDCLPLSSEK--QPFFHRWTVLDYS---KAYSSGDITPRMVAERFIAAVRESSNPPMK 172
L E+ Q F ++Y + P M+ +I N
Sbjct: 66 RLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV 125
Query: 173 MSFFINYN---EEDI--LKQATESTLRYKKGEPISVLDG-------VLIA--VKDE-IDC 217
F YN + L+QA L + ++DG + + C
Sbjct: 126 ---FAKYNVSRLQPYLKLRQA----LLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQC 178
Query: 218 SPYPTTGGTKWLHKVRPCTGDACCVMRLRLCGAILVGKTNMHELGAGTSGI--------- 268
WL+ + + M +L I N +S I
Sbjct: 179 KMD---FKIFWLNLKNCNSPETVLEMLQKLLYQI---DPNWTSRSDHSSNIKLRIHSIQA 232
Query: 269 -------NPHYG----VARNPYDP---------SKI--TGGSSSGSAAVVAAGLCPVALG 306
+ Y V N + KI T + + AA ++L
Sbjct: 233 ELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLD 292
Query: 307 VDGGG-----SVRMPAALCGVVGFKPTFGRIPLS--GVLPLNWTVGMVGILAATVEDALV 359
+ L + +P +P P + I+A ++ D L
Sbjct: 293 HHSMTLTPDEVKSL---LLKYLDCRP--QDLPREVLTTNPR-----RLSIIAESIRDGLA 342
Query: 360 ------------VYAAINGPLPSQQPT------VSLPKVSFPLLKSATSISAIKLAKYDA 401
+ I L +P L FP S I I L+
Sbjct: 343 TWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRL--SVFP--PS-AHIPTILLSLI-- 395
Query: 402 WFNDCSDDIRV----CCSRAVDKLCERYGWKVVEVTIPNIEVMRLAHYLTIGSECSTS-- 455
WF+ D+ V + L E+ K ++IP+I YL + +
Sbjct: 396 WFDVIKSDVMVVVNKLHKYS---LVEKQ-PKESTISIPSI-------YLELKVKLENEYA 444
Query: 456 -----LSSYLQKINCSDQGWD-ARVALSVYGSFSSQEYI-----KAQKIRK----PKVFH 500
+ Y I + D L Y +S +I + + VF
Sbjct: 445 LHRSIVDHY--NIPKTFDSDDLIPPYLDQY-FYS---HIGHHLKNIEHPERMTLFRMVFL 498
Query: 501 DL 502
D
Sbjct: 499 DF 500
>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 = 63.1 bits (153), Expect = 2e-10
Identities = 93/569 (16%), Positives = 159/569 (27%), Gaps = 195/569 (34%)
Query: 76 ISYAELEDSPLYVP--LHPYDSEDLKEQEIKHI----------DSDLSPPEKVQQAIDCL 123
+S+ LE L VP S+ L+EQ K + D +P E V + + +
Sbjct: 11 LSHGSLEHV-LLVPTASFFIASQ-LQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYV 68
Query: 124 PLSSEKQPFFHRWTVL-----DYSKAYSSG-DI----------------TPRMVAERFIA 161
E VL ++ Y G DI + + + +I
Sbjct: 69 SSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYIT 128
Query: 162 AVRESSNPPMKM--SFFIN---------Y-------NEEDILKQATESTLR--YKKGEP- 200
A + P K S N +D + E LR Y+
Sbjct: 129 ARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFE---E--LRDLYQTYHVL 183
Query: 201 ----ISVLDGVLIA-VKDEIDCSPYPTTGG--TKWLHK--VRPCTGDACCVMRLRLCGAI 251
I L ++ +D T G +WL P + I
Sbjct: 184 VGDLIKFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSI-------PI 236
Query: 252 ---LVGKTNMHELGAGTSGINPHYGVAR-----NPYDPSKITGGSSSGSAAVVAAGLCPV 303
L+G + HY V P + G++ S +V A +
Sbjct: 237 SCPLIGVIQL-----------AHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVA--I 283
Query: 304 ALGVDG----GGSVRMPAAL--CGVVGFKPTFGRIPLS-GVLPLNWTVG------MV--- 347
A + L GV ++ + L +L + M+
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVRCYE-AYPNTSLPPSILEDSLENNEGVPSPMLSIS 342
Query: 348 GILAATVEDAL-----------VVYAA-INGP-----------L---------------- 368
+ V+D + V + +NG L
Sbjct: 343 NLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGL 402
Query: 369 -----P-SQ-QPTVS---LPKVS--F--PLLKSATSISAIKLAKYDAWFN---------D 405
P S+ + S LP V+ F LL A+ + L K + FN D
Sbjct: 403 DQSRIPFSERKLKFSNRFLP-VASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYD 461
Query: 406 CSD--DIRVCCSRAVDKLCERYGWKVVEVTI--PNIEVMRLAHYLTIGSECSTSLSSYLQ 461
D D+RV +++ + ++ + + + H L G ++ L
Sbjct: 462 TFDGSDLRVLSGSISERIVD----CIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTH 517
Query: 462 KINCSDQGWDARVALSVYGSFSSQ---EY 487
+ G RV ++ G+ +Y
Sbjct: 518 RNK---DGTGVRVIVA--GTLDINPDDDY 541
Score = 38.5 bits (89), Expect = 0.005
Identities = 26/149 (17%), Positives = 48/149 (32%), Gaps = 45/149 (30%)
Query: 317 AALCGVVGFKPTFGRIPLSGVLPLNWTVGMV---GILAATV----EDALVVY--AAINGP 367
AAL + + V+ + V +V G+ E Y AIN
Sbjct: 1768 AALASL------------ADVMSIESLVEVVFYRGMTMQVAVPRDELGRSNYGMIAIN-- 1813
Query: 368 LPSQQPTVSLPKVSFPLLKSATSISAIKLAKYDAWF----ND-CSDDIRVCC--SRAVDK 420
P + V+ + A ++ K W N + V RA+D
Sbjct: 1814 -PGR--------VAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDT 1864
Query: 421 LCERYGWKVV-EVTIPNIEVMRLAHYLTI 448
+ V+ + + I+++ L L++
Sbjct: 1865 VTN-----VLNFIKLQKIDIIELQKSLSL 1888
Score = 37.0 bits (85), Expect = 0.016
Identities = 42/225 (18%), Positives = 68/225 (30%), Gaps = 81/225 (36%)
Query: 1 M----GLFRAEGVVYKPVQETDTASPPPPQPNQFYLTANVKAPRMAGFLVKVFVWLLESP 56
M L + + V V +T++ P Q + + V + V
Sbjct: 338 MLSISNLTQEQ--VQDYVNKTNSHLPAG---KQVEI-SLVNGAKN-------LV------ 378
Query: 57 ILGG--LLLYILKRNNLIHKFISYAELEDS----------------PLYVPLH-PY---- 93
+ G LY L N + K + + L+ S P+ P H
Sbjct: 379 -VSGPPQSLYGL--NLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPA 435
Query: 94 ---DSEDLKEQEIKHIDSDLSPP------------------EKVQQAIDCLPLSSEKQPF 132
++DL + + D+ P E++ I LP+ E
Sbjct: 436 SDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQ 495
Query: 133 F---HRWTVLDYSKAYSSG--DITPRMVA---ERFIAAVRESSNP 169
F H +LD+ +SG +T R R I A NP
Sbjct: 496 FKATH---ILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINP 537
>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 = 29.1 bits (64), Expect = 1.9
Identities = 3/30 (10%), Positives = 13/30 (43%), Gaps = 7/30 (23%)
Query: 99 KEQEIKHIDSDLSP--PEK-----VQQAID 121
++Q +K + + L + ++ ++
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATME 47
>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C,
TPR-containing domain, structural genomics; 1.63A
{Plasmodium falciparum} SCOP: a.118.8.1
Length = 198
Score = 28.6 bits (64), Expect = 4.0
Identities = 11/29 (37%), Positives = 13/29 (44%)
Query: 91 HPYDSEDLKEQEIKHIDSDLSPPEKVQQA 119
H E+L Q K D + EKVQ A
Sbjct: 10 HSSGRENLYFQGAKKSIYDYTDEEKVQSA 38
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 28.5 bits (63), Expect = 4.9
Identities = 13/81 (16%), Positives = 29/81 (35%), Gaps = 16/81 (19%)
Query: 73 HKFISYAELEDSP------LYVPLHPYDSEDLKEQEIKHIDSDLSPPEKVQQAIDCLPLS 126
+ +S EL D+ L + P+++ ++ + + S+ + + +D
Sbjct: 145 IRIVSGLELSDTKQKGKKFLVIAYEPFENIAIELPPNEILFSENNDMDNNNDGVD----- 199
Query: 127 SEKQPFFHRWTVLDY-SKAYS 146
+ T D SK Y
Sbjct: 200 ----ELNKKCTFWDAISKLYY 216
>1h16_A Formate acetyltransferase 1; lyase, glycyl radical enzyme,
acyltransferase, acetylation; HET: COA PG4; 1.53A
{Escherichia coli} SCOP: c.7.1.1 PDB: 1h17_A* 1h18_A*
1mzo_A* 2pfl_A 3pfl_A 1cm5_A 1qhm_A
Length = 759
Score = 28.4 bits (63), Expect = 6.8
Identities = 29/154 (18%), Positives = 49/154 (31%), Gaps = 22/154 (14%)
Query: 55 SPILGGLLLYILKRNNLIHKFISYAELEDSPLYVPLHPYDSEDLKEQEIKHIDSDLSP-- 112
S I YI K+ I ++PL L P+ + E K + +L P
Sbjct: 79 STITSHDAGYINKQLEKI-----VGLQTEAPLKRALIPFGGIKMIEGSCKAYNRELDPMI 133
Query: 113 ----PE---KVQQAIDCLPLSSEKQPFFHRWTVLDYSKAYSSGDITP--RMVAERFIAAV 163
E Q + + + + AY G I R VA I +
Sbjct: 134 KKIFTEYRKTHNQGV-FDVYTPDILRCRKSGVLTGLPDAYGRGRIIGDYRRVALYGIDYL 192
Query: 164 RESSNPPMKMSFFINYNEEDILKQATESTLRYKK 197
+ K++ F + + E T+R ++
Sbjct: 193 MK-----DKLAQFTSLQADLENGVNLEQTIRLRE 221
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
0.319 0.136 0.417
Gapped
Lambda K H
0.267 0.0515 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,998,981
Number of extensions: 496254
Number of successful extensions: 988
Number of sequences better than 10.0: 1
Number of HSP's gapped: 958
Number of HSP's successfully gapped: 25
Length of query: 506
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 408
Effective length of database: 3,965,535
Effective search space: 1617938280
Effective search space used: 1617938280
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 (21.7 bits)
S2: 59 (27.0 bits)