RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 009991
(520 letters)
>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 = 588 bits (1517), Expect = 0.0
Identities = 210/504 (41%), Positives = 297/504 (58%), Gaps = 35/504 (6%)
Query: 37 FPIREATIKDLQLAFKQNKLTSRQLVEFYLGEIHRLN---PLLHGVIEVNPDALSQADKA 93
FP E + DLQ +L S L + YL I L+ P L VIE+NPDAL +A +
Sbjct: 6 FPYAETDVADLQARMTAGELDSTTLTQAYLQRIAALDRTGPRLRAVIELNPDALKEAAER 65
Query: 94 DYERKVKAPGSLPGLHGIPILLKDNIATKDKMNTTAGSYALLGSVVPRDAGVVTKLREAG 153
D ER+ LHGIP+LLKDNI M T+AGS AL G P DA +V +LR+AG
Sbjct: 66 DRERR--DGRLRGPLHGIPLLLKDNINAAP-MATSAGSLALQG-FRPDDAYLVRRLRDAG 121
Query: 154 AIILGKASLSEWANFRSSNAPNGFCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVS 213
A++LGK +LSEWANFR +++ +G+ ARGGQ +NPY +S P GSSSGSA++VA NL +V+
Sbjct: 122 AVVLGKTNLSEWANFRGNDSISGWSARGGQTRNPYRISHSPCGSSSGSAVAVAANLASVA 181
Query: 214 LGTETDGSILSPSSSNSVVGIKPTVGLTSRAGVIPLTPRQDSVGPICRTVADAVYVLDAI 273
+GTETDGSI+ P++ N VVG+KPTVGL SR G+IP++ QD+ GP+ R+VADA VL AI
Sbjct: 182 IGTETDGSIVCPAAINGVVGLKPTVGLVSRDGIIPISFSQDTAGPMARSVADAAAVLTAI 241
Query: 274 AGFDHNDPATSAASKYIPHGGYKQFIKPHGLKGKRLGVVRNPFFNILKGSPLAQVFDHHL 333
AG D DPAT+ + Y + P GL+GKR+G+++ P + + +
Sbjct: 242 AGRDDADPATATMPGRAVY-DYTARLDPQGLRGKRIGLLQTPLLK---YRGMPPLIEQAA 297
Query: 334 QTLRQEGALVIDHLEIANVNSKNSISNDETIAMLAEFKLALNAYLKELVTSPVRSLAEVI 393
LR+ GA+V+ +E+ N + + E +L EFK L Y +P+RSLA++I
Sbjct: 298 TELRRAGAVVVP-VELPNQ---GAWAEAERTLLLYEFKAGLERYFNTH-RAPLRSLADLI 352
Query: 394 AFNNKFSDLEKIKEYGQDLLLSAEATDGIGKTE--KAAILNLERFTRDGFEKLMSTNNLD 451
AFN S E + +GQ+LL+ A+AT G+ +A +G + ++ + LD
Sbjct: 353 AFNQAHSKQE-LGLFGQELLVEADATAGLADPAYIRARSDARRLAGPEGIDAALAAHQLD 411
Query: 452 ALVTPRSY---------------ASTLLAVGGFPGINVPAGYDSEGVPFGICFGGLKGTE 496
ALV P + + + AV G+P + VP G +G+P G+ F G +E
Sbjct: 412 ALVAPTTGVAWPIRSEGDDFPGESYSAAAVAGYPSLTVPMGQ-IDGLPVGLLFMGTAWSE 470
Query: 497 PKLIEIAYGFEQATKIRKPPSFKS 520
PKLIE+AY +EQ T+ R+PP F +
Sbjct: 471 PKLIEMAYAYEQRTRARRPPHFDT 494
>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 = 234 bits (599), Expect = 4e-72
Identities = 102/487 (20%), Positives = 166/487 (34%), Gaps = 96/487 (19%)
Query: 43 TIKDLQLAFKQNKLTSRQLVEFYLGEIHRLNPLLHGVIEVNPDALSQADKADYERKVKAP 102
++ DLQ + +L+ + I +H + + A +QA
Sbjct: 3 SLADLQRRIETGELSPNAAIAQSHAAIEAREKEVHAFVRHDKSARAQASGP--------- 53
Query: 103 GSLPGLHGIPILLKDNIATKDKMNTTAGSYALLGSVVPRDAGVVTKLREAGAIILGKASL 162
L GI + +KD I T + M T GS G DA VV L+ AGA I+GK +
Sbjct: 54 -----LRGIAVGIKDIIDTAN-MPTEMGSEIYRGWQPRSDAPVVMMLKRAGATIIGKTTT 107
Query: 163 SEWANFRSSNAPNGFCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTETDGSI 222
+ +A R A NP+ P G+SSGSA +V ++ ++LGT+T GS+
Sbjct: 108 TAFA-SRDPTAT----------LNPHNTGHSPGGASSGSAAAVGAGMIPLALGTQTGGSV 156
Query: 223 LSPSSSNSVVGIKPTVGLTSRAGVIPLTPRQDSVGPICRTVADAVYVLDAIAGFDHNDPA 282
+ P++ IKP+ + GV + D+VG D L A+ G
Sbjct: 157 IRPAAYCGTAAIKPSFRMLPTVGVKCYSWALDTVGLFGARAEDLARGLLAMTGRSEFSGI 216
Query: 283 TSAASKYIPHGGYKQFIKPHGLKGKRLGVVRNPFFNILKGSPLAQVFDHHLQTLRQEGAL 342
K R+GVVR F + Q ++ + GA
Sbjct: 217 VP-------------------AKAPRIGVVRQEFAGAV-EPAAEQGLQAAIKAAERAGAS 256
Query: 343 VIDHLEIANVNSKNSISNDETIAMLAEFKLALNAYLKELVTSPVRSLAEVIAFNNKFSDL 402
V I + A + R+LA +
Sbjct: 257 VQA------------------IDLPEAVHEAWRIHPIIQDFEAHRALAWEFS-----EHH 293
Query: 403 EKIKEYGQDLLLSAEATDGIGKTEKAAILNLERFTRDGFEKLMSTNNLDALVTPRS---- 458
++I + L + + ++A + R R ++ +D L+T +
Sbjct: 294 DEIAPMLRASLDATVGLTP-KEYDEA--RRIGRRGRRELGEVFE--GVDVLLTYSAPGTA 348
Query: 459 --------------YASTLLAVGGFPGINVPAGYDSEGVPFGICFGGLKGTEPKLIEIAY 504
TL+ G P +NVP G+P G+ G + + A+
Sbjct: 349 PAKALASTGDPRYNRLWTLM---GNPCVNVPVL-KVGGLPIGVQVIARFGNDAHALATAW 404
Query: 505 GFEQATK 511
E A
Sbjct: 405 FLEDALA 411
>2dc0_A Probable amidase; structural genomics, NPPSFA, national project on
protein structural and functional analyses; 2.00A
{Thermus thermophilus}
Length = 434
Score = 222 bits (567), Expect = 3e-67
Identities = 79/304 (25%), Positives = 128/304 (42%), Gaps = 33/304 (10%)
Query: 43 TIKDLQLAFKQNKLTSRQLVEFYLGEIHRLNPLLHGVIEVNPD-ALSQADKADYERKVKA 101
+ + + + + T L+E L + + ++ + A +A +++
Sbjct: 2 DLLEAKRLLETGRTTPLALLEEALERAKAFQDR-NALAYLDEEAARKEALALT--EELRR 58
Query: 102 PGSLPGLHGIPILLKDNIATKDKMNTTAGSYALLGSVVPRDAGVVTKLREAGAIILGKAS 161
LHG+P+ +KD K M T AG+ +P +A V +LREAGA++ K +
Sbjct: 59 GQVRGPLHGLPLTVKDLFPVKG-MPTRAGT-KAPLPPLPEEARAVRRLREAGALLFAKTN 116
Query: 162 LSEWANFRSSNAPNGFCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTETDGS 221
+ E A + G +N S GSS GSA++VA + SLGT+T GS
Sbjct: 117 MHEIA-LGITGENPWT----GPVRNAVDPSRQAGGSSGGSAVAVALGIGLASLGTDTGGS 171
Query: 222 ILSPSSSNSVVGIKPTVGLTSRAGVIPLTPRQDSVGPICRTVADAVYVLDAIAGFDHNDP 281
I P+ N VVG KP+ G S G +PL+ D GP+ R+V DA ++ + +AG
Sbjct: 172 IRIPAGFNGVVGFKPSYGRVSLEGALPLSRSTDHAGPLTRSVRDAHFLTEILAGESIPLE 231
Query: 282 ATSAASKYIPHGGYKQFIKPHGLKGKRLGVVRNPFFNILKGSPLAQVFDHHLQTLRQEGA 341
G++ GV + L G + + F L+ L A
Sbjct: 232 ---------------------GVQNPVFGVPLDFLEGRL-GVEVRKAFTRLLEDLPALRA 269
Query: 342 LVID 345
V +
Sbjct: 270 EVRE 273
Score = 39.1 bits (92), Expect = 0.003
Identities = 11/43 (25%), Positives = 19/43 (44%), Gaps = 1/43 (2%)
Query: 468 GFPGINVPAGYDSEGVPFGICFGGLKGTEPKLIEIAYGFEQAT 510
G P + +P EG+P G+ G G + K++ + E
Sbjct: 392 GVPTLALPFA-KVEGMPVGLQVVGAYGEDGKVLALGGWLEARL 433
>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 = 219 bits (561), Expect = 9e-66
Identities = 97/340 (28%), Positives = 162/340 (47%), Gaps = 34/340 (10%)
Query: 39 IREATIKDLQLAFKQNKLTSRQLVEFYLGEIHRLNPLLHGVIEVNPD-ALSQADKADYER 97
IR ++++L K K+ +V+ I +P + + ++ + A+ +A + D
Sbjct: 3 IRYESVENLLTLIKDKKIKPSDVVKDIYDAIEETDPTIKSFLALDKENAIKKAQELD--E 60
Query: 98 KVKAPGSLPGLHGIPILLKDNIATKDKMNTTAGSYALLGSVVPRDAGVVTKLREAGAIIL 157
L GIP+ +KDNI T + TT S L G V ++ V+ KL + A+++
Sbjct: 61 LQAKDQMDGKLFGIPMGIKDNIITNG-LETTCASKMLEGFVPIYESTVMEKLHKENAVLI 119
Query: 158 GKASLSEWANFRSSNAPNGFCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTE 217
GK ++ E+A S + F + NP+ A P GSS GSA +VA LV +SLG++
Sbjct: 120 GKLNMDEFA-MGGSTETSYF----KKTVNPFDHKAVPGGSSGGSAAAVAAGLVPLSLGSD 174
Query: 218 TDGSILSPSSSNSVVGIKPTVGLTSRAGVIPLTPRQDSVGPICRTVADAVYVLDAIAGFD 277
T GSI P++ VVG+KPT G SR G++ D +GP+ R V D VL+AI+G D
Sbjct: 175 TGGSIRQPAAYCGVVGMKPTYGRVSRFGLVAFASSLDQIGPLTRNVKDNAIVLEAISGAD 234
Query: 278 HNDPATSAASKYIPHGGYKQFIKPHGLKGKRLGVVRNPFFNILKGSPLAQVFDHHLQTLR 337
ND +TSA + + I +KG ++ + + + + + + ++TL+
Sbjct: 235 VND-STSAP---VDDVDFTSEIGK-DIKGLKVALPKE-YLGEGVADDVKEAVQNAVETLK 288
Query: 338 QEGALVIDHLEIANVNSKNSISNDETIAMLAEFKLALNAY 377
GA+V + +S L K + +Y
Sbjct: 289 SLGAVVEE------------VS-------LPNTKFGIPSY 309
Score = 41.7 bits (99), Expect = 4e-04
Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 2/50 (4%)
Query: 468 GFPGINVPAGYDSEGVPFGICFGGLKGTEPKLIEIAYGFEQATKI-RKPP 516
G PGI+VP G S G P G+ F G E L +AY +E +
Sbjct: 435 GLPGISVPCG-QSNGRPIGLQFIGKPFDEKTLYRVAYQYETQYNLHDVYE 483
>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 = 214 bits (548), Expect = 5e-64
Identities = 99/335 (29%), Positives = 158/335 (47%), Gaps = 42/335 (12%)
Query: 43 TIKDLQLAFKQNKLTSRQLVEFYLGEIHRLNPLLHGVIEVNPDALSQADKADYERKVKAP 102
+++ + +++ ++ + YL + L+P L + +N L +A+ D
Sbjct: 2 LAHEIRARVARGEVSPLEVAQAYLKRVQELDPGLGAFLSLNERLLEEAEAVDPGLP---- 57
Query: 103 GSLPGLHGIPILLKDNIATKDKMNTTAGSYALLGSVVPRDAGVVTKLREAGAIILGKASL 162
L G+ + +KDNIAT+ + TTAGS L V P +A V +L+ GA++LGK +L
Sbjct: 58 -----LAGLVVAVKDNIATRG-LRTTAGSRLLENFVPPYEATAVARLKALGALVLGKTNL 111
Query: 163 SEWANFRSSNAPNGFCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTETDGSI 222
E+ SS + F KNP+ P GSS GSA ++A +L ++LG++T GS+
Sbjct: 112 DEFG-MGSSTEHSAF----FPTKNPFDPDRVPGGSSGGSAAALAADLAPLALGSDTGGSV 166
Query: 223 LSPSSSNSVVGIKPTVGLTSRAGVIPLTPRQDSVGPICRTVADAVYVLDAIAGFDHNDPA 282
P++ V G+KPT G SR G+I D +GP+ R+V D ++DA AG D D A
Sbjct: 167 RQPAAFCGVYGLKPTYGRVSRFGLIAYASSLDQIGPMARSVRDLALLMDAAAGPDPLD-A 225
Query: 283 TSAASKYIPHGGYKQFIKPHGLKGKRLGVVRNPFFNILKGSPLAQVFDHHLQTLRQEGAL 342
TS P +++ ++ L RLGVVR G + + + L+ R+ G
Sbjct: 226 TSLDLP--PR--FQEALEG-PLPPLRLGVVREALAGNSPG--VERALEEALKVFRELGLS 278
Query: 343 VIDHLEIANVNSKNSISNDETIAMLAEFKLALNAY 377
V + +S AL AY
Sbjct: 279 VRE------------VS-------WPSLPQALAAY 294
Score = 42.1 bits (100), Expect = 3e-04
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 468 GFPGINVPAGYDSEGVPFGICFGGLKGTEPKLIEIAYGFEQATKI--RKPP 516
G P ++ PAG++ +P G+ G + +L+ A FE+AT K P
Sbjct: 417 GLPALSFPAGFE-GHLPVGLQLLAPWGEDERLLRAALAFEEATARAHLKAP 466
>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 = 213 bits (546), Expect = 1e-63
Identities = 103/340 (30%), Positives = 165/340 (48%), Gaps = 40/340 (11%)
Query: 39 IREATIKDLQLAFKQNKLTSRQLVEFYLGEIHRLNPLLHGVIEVNPD-ALSQADKADYER 97
+ + ++ +L+ K+ +++ +++VE + ++ + I AL QA+
Sbjct: 2 LWKKSLSELRELLKRGEVSPKEVVESFYDRYNQTEEKVKAYITPLYGKALKQAESLKERE 61
Query: 98 KVKAPGSLPGLHGIPILLKDNIATKDKMNTTAGSYALLGSVVPRDAGVVTKLREAGAIIL 157
P L GIPI +KDNI + TT S L V P DA V+ +L++AGA+I+
Sbjct: 62 ---LP-----LFGIPIAVKDNILVEG-EKTTCASKILENFVAPYDATVIERLKKAGALIV 112
Query: 158 GKASLSEWANFRSSNAPNGFCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTE 217
GK +L E+A SS + F KNP+ L P GSS GSA SVA VSLG++
Sbjct: 113 GKTNLDEFA-MGSSTEYSAF----FPTKNPWDLERVPGGSSGGSAASVAVLSAPVSLGSD 167
Query: 218 TDGSILSPSSSNSVVGIKPTVGLTSRAGVIPLTPRQDSVGPICRTVADAVYVLDAIAGFD 277
T GSI P+S V+GIKPT G SR G++ D +G R D VL+ I+G+D
Sbjct: 168 TGGSIRQPASFCGVIGIKPTYGRVSRYGLVAFASSLDQIGVFGRRTEDVALVLEVISGWD 227
Query: 278 HNDPATSAASKYIPHGGYKQFIKPHGLKGKRLGVVRNPFFNILKGSPLAQVFDHHLQTLR 337
D +TSA +P + + +K +KG ++G+ + FF + + F++ ++ L
Sbjct: 228 EKD-STSAK---VPVPEWSEEVKK-EVKGLKIGLPKE-FFEYELQPQVKEAFENFIKELE 281
Query: 338 QEGALVIDHLEIANVNSKNSISNDETIAMLAEFKLALNAY 377
+EG + + +S L K ++ Y
Sbjct: 282 KEGFEIKE------------VS-------LPHVKYSIPTY 302
Score = 41.7 bits (99), Expect = 5e-04
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 468 GFPGINVPAGYDSEGVPFGICFGGLKGTEPKLIEIAYGFEQAT--KIRKPPS 517
G P I++P + +G+P G G E L++I+Y +EQ + P +
Sbjct: 428 GLPAISIPIAW-KDGLPVGGQLIGKHWDETTLLQISYLWEQKFKHYEKIPLT 478
>3a1k_A Amidase; AS family enzyme, hydrolase; 2.17A {Rhodococcus SP} PDB:
3a1i_A
Length = 521
Score = 214 bits (546), Expect = 3e-63
Identities = 116/532 (21%), Positives = 178/532 (33%), Gaps = 105/532 (19%)
Query: 46 DLQLAFKQNKLTSRQLVEFYLGEIHRLNPLLHGVIEVNPD-ALSQADK----ADYERKVK 100
L + + +L + + A+ A + A Y
Sbjct: 21 TLDKTARLEWPALIDGALGSYDVVDQLYADEATPPTTSREHAVPSASENPLSAWYVTTSI 80
Query: 101 APGSLPGLHGIPILLKDNIATKDKMNTTAGSYALLGSVVPRDAGVVTKLREAGAIILGKA 160
P S L G + +KDN+ + GS + G RDA VVT+L AGA + GKA
Sbjct: 81 PPTSDGVLTGRRVAIKDNVTVAG-VPMMNGSRTVEGFTPSRDATVVTRLLAAGATVAGKA 139
Query: 161 SLSEWANFRSSNAPNGFCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTETDG 220
+ F S+ G +NP+ + GSS GSA VA V ++G + G
Sbjct: 140 VCEDLC-FSGSSFTPAS----GPVRNPWDRQREAGGSSGGSAALVANGDVDFAIGGDQGG 194
Query: 221 SILSPSSSNSVVGIKPTVGLTSRAGVIPLTPRQDSVGPICRTVADAVYVLDAIAGFDHND 280
SI P++ VVG KPT GL G P+ D +GPI RTV DA +L IAG D ND
Sbjct: 195 SIRIPAAFCGVVGHKPTFGLVPYTGAFPIERTIDHLGPITRTVHDAALMLSVIAGRDGND 254
Query: 281 PATSAASKYIPHGGYKQFIKPHGLKGKRLGVVRNPFFNILKGSPLAQVFDHHLQTLRQEG 340
P A S Y + + G R+G+VR F + + + +L + G
Sbjct: 255 P-RQADSVEAGD--YLSTLDS-DVDGLRIGIVREGFGHAVSQPEVDDAVRAAAHSLTEIG 310
Query: 341 ALVIDHLEIANVNSKNSISNDETIAMLAEFKLALNAYLKELVTSPVRSLAEVIAFNNKF- 399
V + ++ + A + + V +
Sbjct: 311 CTVEE------------VN-------IPWHLHAFHIWN-------VIATDG--GAYQMLD 342
Query: 400 -----------SDLEKIKEYGQDLLLSAEATDGIGKTEKAAIL----------------- 431
D E + + + A+ + +T K L
Sbjct: 343 GNGYGMNAEGLYDPELMAHFASRRIQHAD---ALSETVKLVALTGHHGITTLGGASYGKA 399
Query: 432 -NLERFTRDGFEKLMSTNNLDALVTPRS-----------------YASTLLAVG------ 467
NL R ++ + D LV P L +
Sbjct: 400 RNLVPLARAAYDTALR--QFDVLVMPTLPYVASELPAKDVDRATFITKALGMIANTAPFD 457
Query: 468 --GFPGINVPAGYDSEGVPFGICFGGLKGTEPKLIEIAYGFEQAT-KIRKPP 516
G P ++VPAG G+P G+ G + ++ + FE+ P
Sbjct: 458 VTGHPSLSVPAGL-VNGLPVGMMITGRHFDDATVLRVGRAFEKLRGAFPTPA 508
>3a2q_A 6-aminohexanoate-cyclic-dimer hydrolase; alpha/beta fold, nylon
degradation; 1.80A {Arthrobacter SP} PDB: 3a2p_A
Length = 493
Score = 208 bits (533), Expect = 1e-61
Identities = 104/498 (20%), Positives = 179/498 (35%), Gaps = 62/498 (12%)
Query: 50 AFKQNKLTSRQLVEFYLGEIHRLNPLLHGVIEVNPD-ALSQADKADYERKVKAPGSLPGL 108
+ +++ +L+E + + +NP ++ VI + A +++ A P
Sbjct: 16 LVRSGEISRTELLEATIAHVQAVNPEINAVIIPLFEKARRESELAS------GP-----F 64
Query: 109 HGIPILLKDNIATKDKMNTTAGSYAL--LGSVVPRDAGVVTKLREAGAIILGKASLSEWA 166
G+P LLKD T+ + G DA V ++R AG ++LGK + E
Sbjct: 65 AGVPYLLKDLTVVSQGDINTSSIKGMKESGYRADHDAYFVQRMRAAGFVLLGKTNTPEMG 124
Query: 167 NFRSSNAPNGFCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTETDGSILSPS 226
+ + P + G +NP+ L GSS GS +VA L V+ G + G++ P+
Sbjct: 125 -NQVTTEPEAW----GATRNPWNLGRSVGGSSGGSGAAVAAALSPVAHGNDAAGAVRIPA 179
Query: 227 SSNSVVGIKPTVGLTSRAGVIPLTPRQD---SVGPICRTVADAVYVLDAIAGFDHNDPAT 283
S VVG+KPT G S ++ + G R+V D +LD ++G D
Sbjct: 180 SVCGVVGLKPTRGRISPGPLVTDSDNVAGAAHEGLFARSVRDIAALLDVVSGHRPGDTFC 239
Query: 284 SAASKYIPHGGYKQFIKPHGLKGKRLGVVRNPFFNILKGSP-LAQVFDHHLQTLRQEGAL 342
+ Y Q I R+GV+ + P A L G
Sbjct: 240 APT----ASRPYAQGISE-NPGSLRVGVLTHNPVGDFALDPECAAAARGAAAALAALGHD 294
Query: 343 VID-----HLEIANVNSKNSISNDETIAMLAEFKLALN-AYLKELVTSPVRSLAEVI--- 393
V D + + + ++I + + + ++ V + +
Sbjct: 295 VNDAYPEALGDRSFLKDYSTICDVAIAREIERNGELIGRPLTEDDVEWTSWEMVKRADQV 354
Query: 394 ----------AFNNKFSDLEKIKEYGQDLLLS---AEATDGIGKTEKAAILNLERFTRDG 440
+E+ E G DLL+ T IG+ A +LE
Sbjct: 355 TGRAFAACVDELRYYAGKVERWWEAGWDLLILPTVTRQTPEIGELMLAKGTDLEGRQSAF 414
Query: 441 FEKLMSTNNLDALVTPRSYASTLLAVGGFPGINVPAGYDSEGVPFGICFGGLKGTEPKLI 500
+ + + G P I++P G S+G+P G+ G E L+
Sbjct: 415 ISGSLQM-------LAFTVPFNVS---GQPAISLPIGMSSDGMPIGVQIVAAYGREDLLL 464
Query: 501 EIAYGFEQAT--KIRKPP 516
++A E A R+P
Sbjct: 465 QVAAQLEGALPWVARRPQ 482
>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 = 199 bits (509), Expect = 2e-58
Identities = 98/338 (28%), Positives = 155/338 (45%), Gaps = 48/338 (14%)
Query: 41 EATIKDLQLAFKQNKLTSRQLVEFYLGEIHRLNPLLHGVIEVNPD-ALSQADKADYERKV 99
+ ++ K ++ +L + L I RL+P + I V + ++ + K
Sbjct: 6 DFRKLTIEECLKLSEEEREKLPQLSLETIKRLDPHVKAFISVRENVSVEKKGK------- 58
Query: 100 KAPGSLPGLHGIPILLKDNIATKDKMNTTAGSYALLGSVVPRDAGVVTKLREAGAIILGK 159
GIP+ +KDNI T M TT S L DA VV K++EAG +++GK
Sbjct: 59 --------FWGIPVAIKDNILTLG-MRTTCASRILENYESVFDATVVKKMKEAGFVVVGK 109
Query: 160 ASLSEWANFRSSNAPNGFCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTETD 219
A+L E+A SS + F +NP+ L P GSS GSA +V+ +V +LG++T
Sbjct: 110 ANLDEFA-MGSSTERSAF----FPTRNPWDLERVPGGSSGGSAAAVSAGMVVAALGSDTG 164
Query: 220 GSILSPSSSNSVVGIKPTVGLTSRAGVIPLTPRQDSVGPICRTVADAVYVLDAIAGFDHN 279
GS+ P+S VVG KPT GL SR G++ D +GPI +TV DA +++ I+G D N
Sbjct: 165 GSVRQPASLCGVVGYKPTYGLVSRYGLVAFASSLDQIGPITKTVRDAAILMEIISGRDEN 224
Query: 280 DPATSAASKYIPHGGYKQFIKPHGLKGKRLGVVRNPFFNILKGSPLAQVFDHHLQTLRQE 339
D AT+ K + I+ G+ G + V + +++ F+ L+ L +
Sbjct: 225 D-ATTVNRKV----DFLSEIEE-GVSGMKFAVPEE-IYEHDIEEGVSERFEEALKLLERL 277
Query: 340 GALVIDHLEIANVNSKNSISNDETIAMLAEFKLALNAY 377
GA V + + K ++ Y
Sbjct: 278 GAKVER------------VK-------IPHIKYSVATY 296
Score = 41.8 bits (99), Expect = 4e-04
Identities = 14/49 (28%), Positives = 24/49 (48%), Gaps = 1/49 (2%)
Query: 468 GFPGINVPAGYDSEGVPFGICFGGLKGTEPKLIEIAYGFEQATKIRKPP 516
G P I+VP G+ S +P G+ G + + K+ IA E+ + +
Sbjct: 420 GLPAISVPFGF-SNNLPVGVQVIGRRFADGKVFRIARAIEKNSPYNENG 467
>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 = 180 bits (459), Expect = 2e-50
Identities = 104/554 (18%), Positives = 179/554 (32%), Gaps = 85/554 (15%)
Query: 20 LLPTLLAISAQSNAIHAFPIREATIKDLQLAFKQNKLTSRQLVEFYLGEIHRLNPLLHGV 79
+ + Q+ + + + + L + +L+ + YLG+ +N + V
Sbjct: 49 MDKAVQRFRLQNPDLDSEALLTLPLLQLVQKLQSGELSPEAVFFTYLGKAWEVNKGTNCV 108
Query: 80 IEVNPDALSQADKADYERKVKAPGSLPGLHGIPILLKDNIATKDKMNTTAGSYALLGSVV 139
D +Q +A L+G+P+ LK+ + K ++T G G
Sbjct: 109 TSYLTDCETQLSQAP---------RQGLLYGVPVSLKECFSYKG-HDSTLGLSLNEGMPS 158
Query: 140 PRDAGVVTKLREAGAIILGKASLSEWA-NFRSSNAPNGFCARGGQGKNPYVLSADPWGSS 198
D VV L+ GA+ ++ + ++ SN F GQ NP+ S P GSS
Sbjct: 159 ESDCVVVQVLKLQGAVPFVHTNVPQSMFSYDCSN--PLF----GQTMNPWKSSKSPGGSS 212
Query: 199 SGSAISVAGNLVAVSLGTETDGSILSPSSSNSVVGIKPTVGLTSRAGVIPLTPRQDSV-- 256
G + + LGT+ GSI PS+ + G+KPT S++G+ Q +V
Sbjct: 213 GGEGALIGSGGSPLGLGTDIGGSIRFPSAFCGICGLKPTGNRLSKSGLKGCVYGQTAVQL 272
Query: 257 --GPICRTVADAVYVLDAIAGFDHNDPATSAASKYIPHGGYKQFIKPHGLKGKRLGVVRN 314
GP+ R V L A+ + +P +++ + + R+G
Sbjct: 273 SLGPMARDVESLALCLKALLCEHLFTLDPTVPP--LP---FREEVYR-SSRPLRVGYYET 326
Query: 315 PFFNILKGSPLAQVFDHHLQTLRQEGALVID-----HLEIANVNSKNSISNDETIAMLAE 369
+ + + + Q L G +I V S + +D + L
Sbjct: 327 DNYTMP-SPAMRRALIETKQRLEAAGHTLIPFLPNNIPYALEVLSTGGLFSDGGRSFLQN 385
Query: 370 FKLALNAYLKELVTSPVRSLAEVIAFNNKFSDLEKIKEYGQDLLLSAEATDGIGKTEKAA 429
FK + +R + + L+ + L + EK
Sbjct: 386 FKGDFVDPCLGDLILILRLPSWFKRLLSLL--LKPLFPRLAAFLNNMRPRS----AEKLW 439
Query: 430 ILNLERFT-RDGFEKLMSTNNLDALVTP---------------RSYASTLLA-VGGFPGI 472
L E R NLD L+TP + + T+L FP
Sbjct: 440 KLQHEIEMYRQSVIAQWKAMNLDVLLTPMLGPALDLNTPGRATGAVSYTMLYNCLDFPAG 499
Query: 473 NVPAGY-----------------------------DSEGVPFGICFGGLKGTEPKLIEIA 503
VP +S G+P + L E +
Sbjct: 500 VVPVTTVTAEDDAQMELYKGYFGDIWDIILKKAMKNSVGLPVAVQCVALPWQEELCLRFM 559
Query: 504 YGFEQATKIRKPPS 517
EQ +K PS
Sbjct: 560 REVEQLMTPQKQPS 573
>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 = 69.3 bits (169), Expect = 2e-12
Identities = 117/632 (18%), Positives = 185/632 (29%), Gaps = 219/632 (34%)
Query: 7 ATAILAFSLFSH------LLLPTLLAISAQSNAIHAFPIREATIKDLQ-----LAFKQNK 55
A + +L SH LL+PT ++ A ++E K L A ++
Sbjct: 3 AYSTRPLTL-SHGSLEHVLLVPT-------ASFFIASQLQEQFNKILPEPTEGFA-ADDE 53
Query: 56 LTSR-QLVEFYLGEIHRLNPLLHGVIEVNPDALSQADK------ADYERKVKAPGSLPGL 108
T+ +LV +LG + V P + Q D+ ++E L
Sbjct: 54 PTTPAELVGKFLGYVSS---------LVEPSKVGQFDQVLNLCLTEFENCY--------L 96
Query: 109 HGIPI------LLKDNIATKDKMNTTAGSY--ALLGSVVPRDAGVVTKLREAGAIILGKA 160
G I LL++N T K +Y A + + P D + L A G A
Sbjct: 97 EGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE--GNA 154
Query: 161 SLSEWANFRSSNAPNGFCARGGQGKN-PYV--LSA--DPWGSSSGSAISVAGNLVAVSLG 215
L A F GGQG Y L + G I + ++ +
Sbjct: 155 QL--VAIF------------GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIR 200
Query: 216 TETDGS--------ILS--------PSSSN------SVVGIKPTVGLTSRA--------- 244
T D IL P S P +G+ A
Sbjct: 201 TTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC----PLIGVIQLAHYVVTAKLL 256
Query: 245 GVIPLTPRQDSVGPICRTVADAVYVLDAIAGFDHNDPATSAASKYIPHGGYKQFIKPHGL 304
G P R G + + AIA D + + K I FI G+
Sbjct: 257 GFTPGELRSYLKGAT--GHSQGLVTAVAIAETDSWESFFVSVRKAI---TVLFFI---GV 308
Query: 305 KGKR--------LGVVRN----------PFFNILKGSPLAQVFDHHLQTLRQEGALVIDH 346
+ ++ + P +I QV D+ +
Sbjct: 309 RCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI-SNLTQEQVQDY-VNKTNSHLPAG-KQ 365
Query: 347 LEIANVNSKNSISNDETIAMLAEFKLALNAYLKELVTSPVRSLAEVIAFNNKFSDLEKIK 406
+EI+ VN ++ +V+ P +SL N L K K
Sbjct: 366 VEISLVNGAKNL----------------------VVSGPPQSLY---GLNLT---LRKAK 397
Query: 407 -EYGQD-----------------L---------LLSAEATDGIGKTEKAAILNLER---- 435
G D L LL A+D I K ++
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLL-VPASDLINKDLVKNNVSFNAKDIQ 456
Query: 436 ----FTRDGFE-KLMSTNNLDALV------------TPRSYASTLLAVG--GFPGINVPA 476
T DG + +++S + + +V T + A+ +L G G G+ V
Sbjct: 457 IPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLT 516
Query: 477 GYDSEGVPFGICFGGLKGTEPKLIEIAYGFEQ 508
+ +G + G P + YGF+Q
Sbjct: 517 HRNKDGTGVRVIVAGTLDINP---DDDYGFKQ 545
Score = 45.4 bits (107), Expect = 5e-05
Identities = 59/391 (15%), Positives = 104/391 (26%), Gaps = 158/391 (40%)
Query: 40 REATIKDLQLAFKQNKLTSRQLVEFYLGEIHRLNPLLHGV---------IEVNPDALSQA 90
+D+ + + + F + +I NP+ + I N A+
Sbjct: 1638 TSKAAQDV---WNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFE 1694
Query: 91 DKADYERKVKAPGSLPGLHGIPILLKDNI--ATKDKMNTTAGSYALLGSVVPRDAGVVTK 148
D + K + I + K ++ T + P
Sbjct: 1695 TIVDGKLKTE-----KIFKEINEHSTSYTFRSEKGLLSATQ--FTQ-----P-------- 1734
Query: 149 LREAGAIILGKASLSEWANFRSSNAPNGFCARGGQGKNPYVLSADPWGSSSGSAISVAGN 208
A+ L + + + +S G A AG+
Sbjct: 1735 -----ALTL--MEKAAFEDLKS------------------------KGLIPADAT-FAGH 1762
Query: 209 LVAVSLGTETDGSILSPSSSNSVVGIKPTVGLTSRAGVIPLTPRQDSVGPICRTVADAVY 268
SLG E + L S A V+ + V
Sbjct: 1763 ----SLG-E-----------YA--------ALASLADVMSI--------------ESLVE 1784
Query: 269 VLDAIAGFDHNDPATSAASKYIPH--GGYKQFIKPHGLKGK-RLGVVR-NPFFNILKGSP 324
V+ G Q P G+ G++ NP G
Sbjct: 1785 VV---------------------FYRGMTMQVAVPRDELGRSNYGMIAINP------GRV 1817
Query: 325 LAQVFDHHLQTL-----RQEGALVIDHLEIANVNSKNS---ISNDETIAMLAEFKLALNA 376
A LQ + ++ G LV EI N N +N + D + L LN
Sbjct: 1818 AASFSQEALQYVVERVGKRTGWLV----EIVNYNVENQQYVAAGD--LRALDTVTNVLN- 1870
Query: 377 YLKELVTSPVRSLAEVIAFNNKFSDLEKIKE 407
++K ++ + ++I S LE+++
Sbjct: 1871 FIK------LQKI-DIIELQKSLS-LEEVEG 1893
Score = 36.2 bits (83), Expect = 0.036
Identities = 30/231 (12%), Positives = 59/231 (25%), Gaps = 88/231 (38%)
Query: 22 PTLLAISAQSNAIHAFPIREATIKDLQLAF---KQNKLTSRQLVEFYLGEIHRLNPLLH- 77
P L + A ++ + F S LGE L
Sbjct: 1734 PALTLMEK---AAFED-LKSKGLIPADATFAGH------S-------LGEY---AALASL 1773
Query: 78 -GVIEVNPDALSQADKADYERKVKAPGSLPGLHGIPILLKDNIATKDKMNTTAGSYALLG 136
V+ + + V G + +D++ +Y ++
Sbjct: 1774 ADVMSIE-SLV---------EVVFYRG----------MTMQVAVPRDELG--RSNYGMIA 1811
Query: 137 SVVPRDAGVVTKLREAG--AIILGKASLSEW----ANFRSSNAPNGFCARGGQGKNPYVL 190
+ P V + ++ + W N+ N Q YV
Sbjct: 1812 -INP--GRVAASFSQEALQYVVERVGKRTGWLVEIVNY---NVE------NQQ----YV- 1854
Query: 191 SADPWGSSSGSAISVAGNLVAVSLGTETDGSILSPSSSNSVVGIKPTVGLT 241
AG+L A+ +T ++L+ + I+ L+
Sbjct: 1855 --------------AAGDLRAL----DTVTNVLNFIKLQKIDIIELQKSLS 1887
>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 = 60.6 bits (146), Expect = 9e-10
Identities = 78/601 (12%), Positives = 159/601 (26%), Gaps = 219/601 (36%)
Query: 34 IHAFPIREATIKDLQ----LAFKQNKLTSRQLVEFYLGEIHRLNP--LLHGVIEVNPDAL 87
+ F +A + + ++ L+ + ++ + ++ L + + +
Sbjct: 22 LSVF--EDAFVDNFDCKDVQDMPKSILSKEE-IDHIIMSKDAVSGTLRLFWTLLSKQEEM 78
Query: 88 SQ-----ADKADYE---RKVKAPGSLPGLHGIPILLKDNIATKDKMNTTAGSYALLGSVV 139
Q + +Y+ +K P + + + I +D++ +A V
Sbjct: 79 VQKFVEEVLRINYKFLMSPIKTEQRQPSM-----MTRMYIEQRDRLYNDNQVFAKYN--V 131
Query: 140 PRDAGV------VTKLREAGAIIL------GKASLSE-----------------WANFRS 170
R + +LR A +++ GK ++ W N ++
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKN 191
Query: 171 SNAPNG---------------FCARGGQGKN-------------------PY-----VLS 191
N+P + +R N PY VL
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL 251
Query: 192 ADPWGSSS------GSAISVAGNLVAVSLGTETDGSI---LSPSSSNSVVGIKPTVGLTS 242
+ + + I L+ T + LS +++ + ++ LT
Sbjct: 252 -NVQNAKAWNAFNLSCKI-----LL-----TTRFKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 243 R---------AGVIP--LTPRQ-DSVGPICRTVADAVYVLDAIAGFDHNDPATSAASKYI 290
P L PR+ + P L IA + AT
Sbjct: 301 DEVKSLLLKYLDCRPQDL-PREVLTTNPR---------RLSIIAESIRDGLAT---WDNW 347
Query: 291 PHGGYKQF----------IKPHGLKG--KRLGV--------------------------V 312
H + ++P + RL V V
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVV 407
Query: 313 RNPFFN---ILKGSPLAQVFDHHLQ-----TLRQEGAL---VIDHLEIANVNSKNSIS-- 359
N + K + + + L E AL ++DH I + +
Sbjct: 408 VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPP 467
Query: 360 ---------------NDETIAMLAEF-KLALN-AYLKELVTSPVRSLAEVIAFNNKFSDL 402
N E + F + L+ +L++ + + + N L
Sbjct: 468 YLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL 527
Query: 403 EKIKEYGQDLLLSAEATDGIGKTEKAAILNLERFTRDGFEKLMSTNNLD----ALVTPRS 458
+ K Y D K E+ + + F E L+ + D AL+
Sbjct: 528 KFYKPY---------ICDNDPKYER-LVNAILDFLPKIEENLICSKYTDLLRIALMAEDE 577
Query: 459 Y 459
Sbjct: 578 A 578
Score = 49.9 bits (118), Expect = 2e-06
Identities = 74/437 (16%), Positives = 135/437 (30%), Gaps = 138/437 (31%)
Query: 2 HCL------KMATAILAFSLFSHLLLPTLLAISAQSNAIHAFPIREATIKDLQLAFKQNK 55
+CL + A A AF+L +LL T ++ + A ++ + ++
Sbjct: 245 NCLLVLLNVQNAKAWNAFNLSCKILLTT--RFKQVTDFLSAATTTHISLDHHSMTLTPDE 302
Query: 56 LTSRQLVEFYLGEIHRLNPLLHGVIEVNPDALSQADKADYERKVKAPGSLPGLHGIPILL 115
+ L+ YL R L V+ NP LS I +
Sbjct: 303 --VKSLLLKYLD--CRPQDLPREVLTTNPRRLSI---------------------IAESI 337
Query: 116 KDNIAT--------KDKMNTT-AGSYALLGSVVPRDAGVVTKLREAGAIILGKASLSEWA 166
+D +AT DK+ T S +L R K+ + ++
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYR------KMFDRLSV----------- 380
Query: 167 NFR-SSNAPNGFCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTETDGSILSP 225
F S++ P +LS W +++
Sbjct: 381 -FPPSAHIP------------TILLSL-IWFDVI----------------KSDVMVVVNK 410
Query: 226 SSSNSVVGIKP---TVGLTSRAGVIPLTPRQDSVGPICRTVADAVYVLDAIAGFDHNDPA 282
S+V +P T+ + S + L + ++ + R++ D Y + FD +D
Sbjct: 411 LHKYSLVEKQPKESTISIPSIY--LELKVKLENEYALHRSIVDH-Y--NIPKTFDSDDLI 465
Query: 283 TSAASKYI-PHGGYKQFIKPHGLK----GKRLGVVRNPFFNILKGSPLAQVFDHHLQTLR 337
+Y H G+ H LK +R+ + R F + F Q +R
Sbjct: 466 PPYLDQYFYSHIGH------H-LKNIEHPERMTLFRMVFLD----------FRFLEQKIR 508
Query: 338 QEGALVIDHLEIANV-----NSKNSISNDETIAMLAEFKLALNAYLK-------ELVTSP 385
+ I N K I +++ +++ +NA L L+ S
Sbjct: 509 HDSTAWNASGSILNTLQQLKFYKPYICDND-----PKYERLVNAILDFLPKIEENLICSK 563
Query: 386 VRSLAEVIAFNNKFSDL 402
L IA + +
Sbjct: 564 YTDLLR-IALMAEDEAI 579
Score = 46.0 bits (108), Expect = 3e-05
Identities = 47/338 (13%), Positives = 92/338 (27%), Gaps = 103/338 (30%)
Query: 221 SILSPSSSNSVVGIKPTVGLTSRAGVIPLTPRQDSVGPICRTVADAVY--VLDAIAGFDH 278
SILS + ++ K V T R L+ +++ V V Y ++ I +
Sbjct: 44 SILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIK-TEQ 102
Query: 279 NDPATSAASKYIP-----HGGYKQFIKPHGLKGKRLGVVRNPFFNILKGSPLAQVFDHHL 333
P+ YI + + F K + V R + L+ L
Sbjct: 103 RQPSMMT-RMYIEQRDRLYNDNQVFAKYN--------VSRLQPYLKLR---------QAL 144
Query: 334 QTLRQEGALVIDH-----------LEIAN--------------VNSKNSISNDETIAMLA 368
LR ++I L++ +N KN S + + ML
Sbjct: 145 LELRPAKNVLI-DGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQ 203
Query: 369 EFKLALNAYLKELVTSPVRSLAEVIAFNNKFSDLEKIKEYGQDLLLSAEATDGIGKTEKA 428
+ ++ + + + L K K Y LL
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL--------------- 248
Query: 429 AILNLERFTRDGFEKLMSTNNLDA-------LVTPRSYASTLLAVGGFPGINVPAGYDSE 481
+L + + + +A L+T R + + ++ + S
Sbjct: 249 -VL------LN----VQNAKAWNAFNLSCKILLTTR-FKQVTDFLSAATTTHISLDHHSM 296
Query: 482 GVPFGICFGGLKGTEPKLIEIAYGFEQATKIRK---PP 516
+ T ++ + + R P
Sbjct: 297 TL-----------TPDEVKSL---LLKYLDCRPQDLPR 320
Score = 30.6 bits (68), Expect = 1.7
Identities = 24/114 (21%), Positives = 40/114 (35%), Gaps = 21/114 (18%)
Query: 2 HCLKMATAILAFSLFSHLLLPTLLA-----ISAQSNAIHAFPIREATIKDLQLAFKQ--- 53
H LK +LF + L I S A +A T++ L+ +K
Sbjct: 480 H-LKNIEHPERMTLFRMVFLD--FRFLEQKIRHDSTAWNASGSILNTLQQLKF-YKPYIC 535
Query: 54 -NKLTSRQLVEFYLGEIHRLNPLLH-----GVIEVNPDALSQADKADYERKVKA 101
N +LV L + ++ L ++ + AL D+A +E K
Sbjct: 536 DNDPKYERLVNAILDFLPKIEENLICSKYTDLLRI---ALMAEDEAIFEEAHKQ 586
>3qhz_H Human monoclonal antibody DEL2D1, FAB heavy chain; immunoglobulin,
immune recognition, influenza A hemagglutini system;
1.55A {Homo sapiens} PDB: 3lzf_H* 3qrg_H* 3mod_H 3mob_H
3moa_H 3lev_H* 3idg_B 3d0l_B 3d0v_B 3idi_B 3idj_B
3idm_B* 3idn_B* 1tjg_H* 1tjh_H* 1tji_H* 2pr4_H 3drq_B
2p8m_B 2p8p_B ...
Length = 232
Score = 32.1 bits (74), Expect = 0.32
Identities = 19/61 (31%), Positives = 24/61 (39%), Gaps = 14/61 (22%)
Query: 177 FCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTETDGSI--LSPSS---SNSV 231
+CAR + YV D WG G LV VS + S+ L+PSS S
Sbjct: 99 YCARTLRVSGDYVRDFDLWG---------RGTLVTVSSASTKGPSVFPLAPSSKSTSGGT 149
Query: 232 V 232
Sbjct: 150 A 150
>4dgw_C PRE-mRNA-splicing factor PRP11; zinc finger; 3.11A {Saccharomyces
cerevisiae}
Length = 231
Score = 31.6 bits (71), Expect = 0.49
Identities = 13/52 (25%), Positives = 17/52 (32%), Gaps = 3/52 (5%)
Query: 468 GFPGINVPAGYDSEGVPFGICFGGLKGTEPKLIEIAYGFEQATKIRKPPSFK 519
G G+ + Y SE + P LI I G E + K K
Sbjct: 114 GSVGMAIQVNYSSEVKENSVDSDDKAKVPP-LIRIVSGLELSDT--KQKGKK 162
>3n9g_H FAB fragment of MAB CR4354, heavy chain; human neutralizing
antibody, immun anti-WEST NIle virus; 1.43A {Homo
sapiens} PDB: 3iyw_H 3qeh_A 3u0t_D 3c08_H 3lmj_H 3lqa_H*
3c09_H* 3pp4_H 3pp3_H 2jb5_H* 2jb6_B* 2eh7_H 2eh8_H
3jwd_H* 3jwo_H* 3t2n_H 3qot_H 3ma9_H 3nfs_H 3nfp_A ...
Length = 230
Score = 30.5 bits (70), Expect = 0.89
Identities = 16/61 (26%), Positives = 21/61 (34%), Gaps = 14/61 (22%)
Query: 177 FCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTETDGSI--LSPSS---SNSV 231
+CAR + WG G LV VS + S+ L+PSS S
Sbjct: 95 YCARDWGSNYVWGSYPKYWG---------QGTLVTVSSASTKGPSVFPLAPSSKSTSGGT 145
Query: 232 V 232
Sbjct: 146 A 146
>1op3_H FAB 2G12, heavy chain; domain-swapped FAB 2G12, anti-carbohydrate
antibody, immune system; HET: MAN; 1.75A {Homo sapiens}
SCOP: b.1.1.1 b.1.1.2 PDB: 1om3_H* 1op5_H* 3oay_M*
1zlu_H* 1zlv_H* 1zlw_H* 2oqj_B 1zls_H* 3ob0_H* 3oau_H*
3oaz_H* 3ghe_H 3eyf_B 3eyo_B 3ghb_H 3c2a_H 1q1j_H
2fl5_H*
Length = 225
Score = 30.5 bits (70), Expect = 1.0
Identities = 17/61 (27%), Positives = 23/61 (37%), Gaps = 14/61 (22%)
Query: 177 FCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTETDGSI--LSPSS---SNSV 231
+CAR G + D WG G +V VS + S+ L+PSS S
Sbjct: 95 YCARKGSDRLSDNDPFDAWG---------PGTVVTVSPASTKGPSVFPLAPSSKSTSGGT 145
Query: 232 V 232
Sbjct: 146 A 146
>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 = 29.5 bits (65), Expect = 1.3
Identities = 8/22 (36%), Positives = 10/22 (45%), Gaps = 3/22 (13%)
Query: 89 QADKADYERKVK--APGSLPGL 108
QA K + +K A S P L
Sbjct: 20 QALK-KLQASLKLYADDSAPAL 40
>3iu4_H CHP3 FAB heavy chain; antibody, ganglioside, idiotype, immune
system; 1.75A {Mus musculus} PDB: 1ibg_H* 3iy6_B
Length = 263
Score = 30.3 bits (69), Expect = 1.4
Identities = 16/61 (26%), Positives = 23/61 (37%), Gaps = 14/61 (22%)
Query: 177 FCARGGQGKNPYVLSADPWGSSSGSAISVAGNLVAVSLGTETDGSI--LSPSS---SNSV 231
+CAR G + WG G LV VS + S+ L+PSS ++
Sbjct: 94 YCARSGVREGRAQAWFAYWG---------QGTLVTVSAASTKGPSVFPLAPSSKGSTSGT 144
Query: 232 V 232
Sbjct: 145 A 145
>1h0b_A Cellulase; endoglucanase, hydrolase; HET: EPE; 1.8A {Rhodothermus
marinus} SCOP: b.29.1.11
Length = 256
Score = 28.1 bits (62), Expect = 6.7
Identities = 6/53 (11%), Positives = 16/53 (30%), Gaps = 1/53 (1%)
Query: 186 NPYVLSADPWGSSSGSAISVAGNLVAVSLGTETDGSILSPSS-SNSVVGIKPT 237
Y + + WG+ + I V ++ + + ++ G
Sbjct: 17 GRYRVINNVWGAETAQCIEVGLETGNFTITRADHDNGNNVAAYPAIYFGCHWG 69
>3tv3_H PGT128 heavy chain, IG gamma-1 chain C region; FAB, HIV-1
neutralizing antibody, GP120, immune system; HET: PCA
MAN GOL EPE; 1.29A {Homo sapiens} PDB: 3tyg_H* 3twc_H*
3tje_H* 3thm_H* 2xzc_H* 2xza_H* 3b2u_H* 3b2v_H* 3mly_H
3mlz_H 2ykl_H* 2yk1_H* 3mlx_H 2jix_D 2vxq_H 3hi1_H*
3uc0_H 3uaj_H 3q1s_H 3fn0_H ...
Length = 239
Score = 27.9 bits (63), Expect = 7.4
Identities = 19/66 (28%), Positives = 23/66 (34%), Gaps = 19/66 (28%)
Query: 177 FCARGGQGKNPYVLSA-----DPWGSSSGSAISVAGNLVAVSLGTETDGSI--LSPSS-- 227
+CAR G Y D WG G LV VS + S+ L+PSS
Sbjct: 102 YCARFGGEVLRYTDWPKPAWVDLWG---------RGTLVTVSSASTKGPSVFPLAPSSKS 152
Query: 228 -SNSVV 232
S
Sbjct: 153 TSGGTA 158
>3c1y_A DNA integrity scanning protein DISA; DNA damage, DNA repair,
DNA-binding, DNA binding protein; HET: DNA 2BA; 2.10A
{Thermotoga maritima} PDB: 3c1z_A* 3c21_A* 3c23_A*
Length = 377
Score = 28.3 bits (63), Expect = 7.4
Identities = 11/69 (15%), Positives = 23/69 (33%), Gaps = 5/69 (7%)
Query: 405 IKEYGQDLLLSAEATDGIGKTEKAAILNLERFTR-DGFEKLMSTNNLDALVTPRSYASTL 463
I +Y + + A + + + +R G++ + D LV+ R Y
Sbjct: 259 IMDYSSEEVEEETAQNILQDFITRREPSPISISRVLGYDVQQAAQLDDVLVSARGYR--- 315
Query: 464 LAVGGFPGI 472
+ I
Sbjct: 316 -LLKTVARI 323
>3kg2_A Glutamate receptor 2; ION channel, membrane protein, cell membrane,
glycoprotein, transport, membrane, postsynaptic cell
membrane, editing; HET: ZK1 NAG BMA; 3.60A {Rattus
norvegicus}
Length = 823
Score = 28.2 bits (62), Expect = 9.1
Identities = 11/55 (20%), Positives = 23/55 (41%), Gaps = 2/55 (3%)
Query: 321 KGSPLAQVFDHHLQTLRQEGALVIDHLEIANVNSKNSISNDETIAMLAEFKLALN 375
KGS L + + L ++G ++D L+ K ++ + L+L+
Sbjct: 729 KGSSLGTPVNLAVLKLSEQG--LLDKLKNKWWYDKGECGAKDSGSKEKTSALSLS 781
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.317 0.135 0.385
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: 7,821,888
Number of extensions: 493060
Number of successful extensions: 997
Number of sequences better than 10.0: 1
Number of HSP's gapped: 934
Number of HSP's successfully gapped: 43
Length of query: 520
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 422
Effective length of database: 3,965,535
Effective search space: 1673455770
Effective search space used: 1673455770
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (27.0 bits)