RPS-BLAST 2.2.22 [Sep-27-2009] Database: pdb70 24,244 sequences; 5,693,230 total letters Searching..................................................done Query= gi|254781179|ref|YP_003065592.1| D-alanine--D-alanine ligase [Candidatus Liberibacter asiaticus str. psy62] (300 letters) >1iow_A DD-ligase, DDLB, D-ALA\:D-Ala ligase; glycogen phosphorylase, cell WALL, peptidoglycan synthesis, vancomycin, ADP binding; HET: ADP PHY; 1.90A {Escherichia coli} SCOP: c.30.1.2 d.142.1.1 PDB: 1iov_A* 2dln_A* Length = 306 Score = 246 bits (628), Expect = 6e-66 Identities = 105/304 (34%), Positives = 160/304 (52%), Gaps = 13/304 (4%) Query: 2 AVLMGGISSEREVSLSSGKACASALEDAGFKVSQIDVDRSVGLVLAHLKPDLAFNVLHGN 61 AVL+GG S+EREVSL+SG A + L + G +D L + F LHG Sbjct: 6 AVLLGGTSAEREVSLNSGAAVLAGLREGGIDAYPVDPKEVDVTQLKSMGFQKVFIALHGR 65 Query: 62 FGEDGLVQAILELLEIPYTHSGILASALSMDKMRSKQVVSSCGVPVCPSILVNRFTMDSQ 121 GEDG +Q +LEL+ +PYT SG++ASALSMDK+RSK + G+PV P + + R + Sbjct: 66 GGEDGTLQGMLELMGLPYTGSGVMASALSMDKLRSKLLWQGAGLPVAPWVALTRAEFEKG 125 Query: 122 HL---------ISPPYVIKPLKGGSSLGIIVIKKDQSIPLDLLQSSSWNHGDQLLIEQYV 172 + P ++KP + GSS+G+ + + + L ++ H +++LIE+++ Sbjct: 126 LSDKQLAEISALGLPVIVKPSREGSSVGMSKVVAENA--LQDALRLAFQHDEEVLIEKWL 183 Query: 173 DGIELTCGVMGDASLDVTEIAVPKSDFYSYELKYSSLNSTHVLPAKIPLDIYKEVQRLAF 232 G E T ++G+ L I P FY YE K+ S + + PA + +Q L Sbjct: 184 SGPEFTVAILGEEILPSIRI-QPSGTFYDYEAKFLSDETQYFCPAGLEASQEANLQALVL 242 Query: 233 LAHQAIGCRGISRSDFLFDPLSRKVFWLEINVQPGMTPVSIFPEMAAYAGYSFRELLLWM 292 A +GC+G R D + D + + LE N PGMT S+ P A AG SF +L++ + Sbjct: 243 KAWTTLGCKGWGRIDVMLDS-DGQFYLLEANTSPGMTSHSLVPMAARQAGMSFSQLVVRI 301 Query: 293 VEDA 296 +E A Sbjct: 302 LELA 305 >3lwb_A D-alanine--D-alanine ligase; DDL, D-alanyl--D-alanine ligase, RV2981C, structural genomics, TB structural genomics consortium, TBSGC; 2.10A {Mycobacterium tuberculosis} Length = 373 Score = 235 bits (601), Expect = 7e-63 Identities = 93/356 (26%), Positives = 150/356 (42%), Gaps = 65/356 (18%) Query: 2 AVLMGGISSEREVSLSSGKACASALEDAGFKVSQIDVDR--------------------- 40 AV+ GG S+E +S S + L+ F V + + Sbjct: 14 AVVFGGRSNEHAISCVSAGSILRNLDSRRFDVIAVGITPAGSWVLTDANPDALTITNREL 73 Query: 41 --------------------------SVGLVLAHLKPDLAFNVLHGNFGEDGLVQAILEL 74 G D+ F VLHG +GEDG +Q +LEL Sbjct: 74 PQVKSGSGTELALPADPRRGGQLVSLPPGAGEVLESVDVVFPVLHGPYGEDGTIQGLLEL 133 Query: 75 LEIPYTHSGILASALSMDKMRSKQVVSSCGVPVCPSILVNRFTMDSQHL----ISPPYVI 130 +PY +G+LASA+ MDK +K+++++ G+PV ++ + P + Sbjct: 134 AGVPYVGAGVLASAVGMDKEFTKKLLAADGLPVGAYAVLRPPRSTLHRQECERLGLPVFV 193 Query: 131 KPLKGGSSLGIIVIKKDQSIPLDLLQSSSWNHGDQLLIEQYVDGIELTCGVMGDAS---- 186 KP +GGSS+G+ + L + + H ++++E + G EL CGV+ Sbjct: 194 KPARGGSSIGVSRVSSWD--QLPAAVARARRHDPKVIVEAAISGRELECGVLEMPDGTLE 251 Query: 187 -LDVTEIAVP-----KSDFYSYELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGC 240 + EI V + FY + KY + +PAK+ + + +++LA A AI C Sbjct: 252 ASTLGEIRVAGVRGREDSFYDFATKYLDDAAELDVPAKVDDQVAEAIRQLAIRAFAAIDC 311 Query: 241 RGISRSDFLFDPLSRKVFWLEINVQPGMTPVSIFPEMAAYAGYSFRELLLWMVEDA 296 RG++R DF EIN PG T +S++P M A +G + LL M+E Sbjct: 312 RGLARVDFFLTD--DGPVINEINTMPGFTTISMYPRMWAASGVDYPTLLATMIETT 365 >3k3p_A D-alanine--D-alanine ligase; D-alanyl-alanine synthetase, ATP-binding, cell shape, cell W biogenesis/degradation, magnesium, manganese; 2.23A {Streptococcus mutans} Length = 383 Score = 233 bits (596), Expect = 3e-62 Identities = 90/334 (26%), Positives = 150/334 (44%), Gaps = 42/334 (12%) Query: 2 AVLMGGISSEREVSLSSGKACASALEDAGFKVSQIDVDRSVGLVLAH------------- 48 +L GG S+ER+VS+ S ++ A+ F V + ++ + Sbjct: 41 VLLYGGRSAERDVSVLSAESVMRAINYDNFLVKTYFITQAGDFIKTQEFDSQPSETDKLM 100 Query: 49 -----------------LKPDLAFNVLHGNFGEDGLVQAILELLEIPYTHSGILASALSM 91 + + F VLHG GEDG +Q LE+L++PY + IL+S+++M Sbjct: 101 TNDTIIASQKIKPSDIYEEEAVVFPVLHGPMGEDGSIQGFLEVLKMPYVGTNILSSSVAM 160 Query: 92 DKMRSKQVVSSCGVPVCPSILVNRFTMDSQHLISP-------PYVIKPLKGGSSLGIIVI 144 DK+ + QV+ S + + + ++ P +KP GSS+GI Sbjct: 161 DKITTNQVLESATTIPQVAYVALIEGEPLESKLAEVEEKLIYPVFVKPANMGSSVGISKA 220 Query: 145 KKDQSIPLDLLQSSSWNHGDQLLIEQYVDGIELTCGVMGDASLDVTEI--AVPKSDFYSY 202 + L + + + ++LIEQ VD E+ G++G+ + T V FY Y Sbjct: 221 ENRTD--LKQAIALALKYDSRVLIEQGVDAREIEVGILGNTDVKTTLPGEIVKDVAFYDY 278 Query: 203 ELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRKVFWLEI 262 E KY T +PA+I I ++++ A A + +GC G+SR DF KV+ E+ Sbjct: 279 EAKYIDNKITMAIPAEIDPVIVEKMRDYAATAFRTLGCCGLSRCDFFLTE-DGKVYLNEL 337 Query: 263 NVQPGMTPVSIFPEMAAYAGYSFRELLLWMVEDA 296 N PG T S++P + G S+ L+ +V A Sbjct: 338 NTMPGFTQWSMYPLLWENMGLSYSVLIEELVSLA 371 >1e4e_A Vancomycin/teicoplanin A-type resistance protein VANA; ligase, cell WALL, antibiotic resistance, membrane, plasmid; HET: ADP PHY; 2.5A {Enterococcus faecium} SCOP: c.30.1.2 d.142.1.1 PDB: 1e4e_B* Length = 343 Score = 221 bits (563), Expect = 2e-58 Identities = 85/337 (25%), Positives = 143/337 (42%), Gaps = 45/337 (13%) Query: 2 AVLMGGISSEREVSLSSGKACASALEDAGFKVSQIDVDR--------------------- 40 A+L GG S E +VS+ S A+ + ++ I + + Sbjct: 7 AILFGGCSEEHDVSVKSAIEIAANINKEKYEPLYIGITKSGVWKMCEKPCAEWENENCYS 66 Query: 41 --------------SVGLVLAHLKPDLAFNVLHGNFGEDGLVQAILELLEIPYTHSGILA 86 D+AF+ LHG GEDG +Q + EL IP+ I + Sbjct: 67 AVLSPDKKMHGLLVKKNHEYEINHVDVAFSALHGKSGEDGSIQGLFELSGIPFVGCDIQS 126 Query: 87 SALSMDKMRSKQVVSSCGVPVCPSILVNRFTMDSQHLISPPYVIKPLKGGSSLGIIVIKK 146 SA+ MDK + V + G+ ++N+ + P +KP + GSS G+ + Sbjct: 127 SAICMDKSLTYIVAKNAGIATPAFWVINKDDRPVAATFTYPVFVKPARSGSSFGVKKVNS 186 Query: 147 DQSIPLDLLQSSSWNHGDQLLIEQYVDGIELTCGVMGDAS----LDVTEIAVPKSDF--- 199 LD S+ + ++LIEQ V G E+ C V+G+++ +V +I + F Sbjct: 187 ADE--LDYAIESARQYDSKILIEQAVSGCEVGCAVLGNSAALVVGEVDQIRLQYGIFRIH 244 Query: 200 YSYELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRKVFW 259 E + S N+ +PA + + +Q ++ +GCRG++R D + ++ Sbjct: 245 QEVEPEKGSENAVITVPADLSAEERGRIQETVKKIYKTLGCRGLARVDMFLQD-NGRIVL 303 Query: 260 LEINVQPGMTPVSIFPEMAAYAGYSFRELLLWMVEDA 296 E+N PG T S +P M A AG S EL+ ++ A Sbjct: 304 NEVNTLPGFTSYSRYPRMMAAAGISLPELIDRLIVLA 340 >1ehi_A LMDDL2, D-alanine:D-lactate ligase; ATP-binding. grAsp motif for ATP.; HET: ADP PHY; 2.38A {Leuconostoc mesenteroides} SCOP: c.30.1.2 d.142.1.1 Length = 377 Score = 220 bits (561), Expect = 3e-58 Identities = 85/348 (24%), Positives = 155/348 (44%), Gaps = 56/348 (16%) Query: 2 AVLMGGISSEREVSLSSGKACASALEDAG------------------------------- 30 A++ GG SSE +VS S + +A+E G Sbjct: 7 ALIFGGNSSEHDVSKRSAQNFYNAIEATGKYEIIVFAIAQNGFFLDTESSKKILALEDEQ 66 Query: 31 -------FKVSQIDVDRSVGLVLAHLKPDLAFNVLHGNFGEDGLVQAILELLEIPYTHSG 83 V D + + + D+ F V+HGN GEDG +Q + +LL+ PY + Sbjct: 67 PIVDAFMKTVDASDPLARIHALKSAGDFDIFFPVVHGNLGEDGTLQGLFKLLDKPYVGAP 126 Query: 84 ILASALSMDKMRSKQVVSSCGVPVCPSILVNRFTMDSQHL------ISPPYVIKPLKGGS 137 + A+S DK +K++++ G+ I+V+ + ++ + +K GS Sbjct: 127 LRGHAVSFDKALTKELLTVNGIRNTKYIVVDPESANNWSWDKIVAELGNIVFVKAANQGS 186 Query: 138 SLGIIVIKKDQSIPLDLLQSSSWNHGDQLLIEQYVDGI-ELTCGVMGDASLDVTEIAV-- 194 S+GI + + S S+ + ++LIE+ V+G EL GV+G+ V+EI Sbjct: 187 SVGISRVTNAEE--YTEALSDSFQYDYKVLIEEAVNGARELEVGVIGNDQPLVSEIGAHT 244 Query: 195 -----PKSDFYSYELKYSSLNSTHVL-PAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDF 248 +Y Y K+ ++ H PA++ ++ KEV+++A A++ + RG +R DF Sbjct: 245 VPNQGSGDGWYDYNNKFVDNSAVHFQIPAQLSPEVTKEVKQMALDAYKVLNLRGEARMDF 304 Query: 249 LFDPLSRKVFWLEINVQPGMTPVSIFPEMAAYAGYSFRELLLWMVEDA 296 L D + + E N PG T +S+F + Y+ + +L+ +++ Sbjct: 305 LLDE-NNVPYLGEPNTLPGFTNMSLFKRLWDYSDINNAKLVDMLIDYG 351 >2i87_A D-alanine-D-alanine ligase; APO; 2.00A {Staphylococcus aureus subsp} PDB: 2i8c_A* 2i80_A* Length = 364 Score = 178 bits (451), Expect = 2e-45 Identities = 83/338 (24%), Positives = 143/338 (42%), Gaps = 46/338 (13%) Query: 2 AVLMGGISSEREVSLSSGKACASALEDAGFKVSQIDVDRSVGLVL--------------- 46 ++ GG S+E EVS+ + + +A++ + V I + Sbjct: 7 CIVFGGKSAEHEVSILTAQNVLNAIDKDKYHVDIIYITNDGDWRKQNNITAEIKSTDELH 66 Query: 47 -----------------AHLKPDLAFNVLHGNFGEDGLVQAILELLEIPYTHSGILASAL 89 + D F +LHG GEDG +Q + E+L++PY +G+L++A Sbjct: 67 LENGEALEISQLLKESSSGQPYDAVFPLLHGPNGEDGTIQGLFEVLDVPYVGNGVLSAAS 126 Query: 90 SMDKMRSKQVVSSCGVPVCPSILVNRFTMDSQHL---------ISPPYVIKPLKGGSSLG 140 SMDK+ KQ+ G+P P I R + ++ P +KP GSS+G Sbjct: 127 SMDKLVMKQLFEHRGLPQLPYISFLRSEYEKYEHNILKLVNDKLNYPVFVKPANLGSSVG 186 Query: 141 IIVIKKDQSIPLDLLQSSSWNHGDQLLIEQYVDGIELTCGV--MGDASLDVTEIAVPKSD 198 I + + + ++ +L+IEQ V+ E+ V V Sbjct: 187 ISKCNNEAELKEGI--KEAFQFDRKLVIEQGVNAREIEVAVLGNDYPEATWPGEVVKDVA 244 Query: 199 FYSYELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRKVF 258 FY Y+ KY +PA + D+ ++ +A A +A C G+ R+DF +++ Sbjct: 245 FYDYKSKYKDGKVQLQIPADLDEDVQLTLRNMALEAFKATDCSGLVRADFFVTE-DNQIY 303 Query: 259 WLEINVQPGMTPVSIFPEMAAYAGYSFRELLLWMVEDA 296 E N PG T S++P++ G S+ EL+ ++E A Sbjct: 304 INETNAMPGFTAFSMYPKLWENMGLSYPELITKLIELA 341 >3e5n_A D-alanine-D-alanine ligase A; bacterial blight; 2.00A {Xanthomonas oryzae PV} Length = 386 Score = 176 bits (447), Expect = 5e-45 Identities = 85/347 (24%), Positives = 154/347 (44%), Gaps = 55/347 (15%) Query: 2 AVLMGGISSEREVSLSSGKACASALEDAGFKVSQIDVDRS-------------------- 41 ++ GG S+E EVSL S + AL+ F+ I +D+ Sbjct: 26 GLIFGGKSAEHEVSLQSARNILDALDPQRFEPVLIGIDKQGQWHVNDPDSFLLHADDPAR 85 Query: 42 -----------------------VGLVLAHLKPDLAFNVLHGNFGEDGLVQAILELLEIP 78 + A + D+ F ++HG GEDG +Q +L + +P Sbjct: 86 IALHRSGRGVALLPGAQQQQLRPIQPEQALAQIDVVFPIVHGTLGEDGSLQGLLRMANLP 145 Query: 79 YTHSGILASALSMDKMRSKQVVSSCGVPVCPSILVNRFTMDSQHL------ISPPYVIKP 132 + SG+L SA++MDK +K+V+ + V P + +R T + + P +KP Sbjct: 146 FVGSGVLGSAVAMDKDMAKRVLRDARLAVAPFVCFDRHTAAHADVDTLIAQLGLPLFVKP 205 Query: 133 LKGGSSLGIIVIKKDQSIPLDLLQSSSWNHGDQLLIEQYVDGIELTCGVMGDAS---LDV 189 GSS+G+ ++ + + + ++L+E V G E+ C V+G+A Sbjct: 206 ANQGSSVGVSQVRTAD--AFAAALALALAYDHKVLVEAAVAGREIECAVLGNAVPHASVC 263 Query: 190 TEIAVPKSDFYSYELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFL 249 E+ V + + S + V+PA I + +Q++A A+QA+GC G++R D Sbjct: 264 GEVVVHDAFYSYATKYISEHGAEIVIPADIDAQTQQRIQQIAVQAYQALGCAGMARVDVF 323 Query: 250 FDPLSRKVFWLEINVQPGMTPVSIFPEMAAYAGYSFRELLLWMVEDA 296 ++ E+N PG T +S++P++ +G +R L+ ++E A Sbjct: 324 LCA-DGRIVINEVNTLPGFTRISVYPKLWQASGLDYRGLITRLIELA 369 >3i12_A D-alanine-D-alanine ligase A; D-alanyl-alanine synthetase A, ADP binding protein, csgid, ATP-binding, cell shape; HET: ADP; 2.20A {Salmonella typhimurium} Length = 364 Score = 157 bits (398), Expect = 2e-39 Identities = 79/347 (22%), Positives = 152/347 (43%), Gaps = 55/347 (15%) Query: 2 AVLMGGISSEREVSLSSGKACASALEDAGFKVSQIDVDRSVGLVL--------------- 46 ++ GG S+E EVSL S K A++ F V + +D++ + Sbjct: 7 GIVFGGKSAEHEVSLQSAKNIVDAIDKTRFDVVLLGIDKAGQWHVNDAENYLQNADDPAH 66 Query: 47 ----------------------------AHLKPDLAFNVLHGNFGEDGLVQAILELLEIP 78 D+ F ++HG GEDG +Q +L + +P Sbjct: 67 IALRPSAISLAQVPGKHQHQLINAQNGQPLPTVDVIFPIVHGTLGEDGSLQGMLRVANLP 126 Query: 79 YTHSGILASALSMDKMRSKQVVSSCGVPVCPSILVNRFTMDSQHL------ISPPYVIKP 132 + S +L+SA MDK +K+++ G+ + P I + R + + P +KP Sbjct: 127 FVGSDVLSSAACMDKDVAKRLLRDAGLNIAPFITLTRTNRHAFSFAEVESRLGLPLFVKP 186 Query: 133 LKGGSSLGIIVIKKDQSIPLDLLQSSSWNHGDQLLIEQYVDGIELTCGVMGDAS---LDV 189 GSS+G+ + + + ++ ++++EQ + G E+ C V+G+ + Sbjct: 187 ANQGSSVGVSKVANEAQYQQA--VALAFEFDHKVVVEQGIKGREIECAVLGNDNPQASTC 244 Query: 190 TEIAVPKSDFYSYELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFL 249 EI + + + V+PA+IP ++ +++ +A A+Q +GC G++R D Sbjct: 245 GEIVLNSEFYAYDTKYIDDNGAQVVVPAQIPSEVNDKIRAIAIQAYQTLGCAGMARVDVF 304 Query: 250 FDPLSRKVFWLEINVQPGMTPVSIFPEMAAYAGYSFRELLLWMVEDA 296 +V EIN PG T +S++P++ +G + +L+ ++E A Sbjct: 305 LTA-DNEVVINEINTLPGFTNISMYPKLWQASGLGYTDLISRLIELA 350 >2fb9_A D-alanine:D-alanine ligase; 1.90A {Thermus caldophilus} PDB: 2zdh_A* 2yzg_A 2yzn_A* 2yzm_A* 2zdg_A* 2zdq_A* Length = 322 Score = 157 bits (397), Expect = 3e-39 Identities = 95/318 (29%), Positives = 152/318 (47%), Gaps = 27/318 (8%) Query: 2 AVLMGGISSEREVSLSSGKACASALEDAGFKV---------------------SQIDVDR 40 ++ GG+S E EVSL S + + + + + Sbjct: 7 LLIAGGVSPEHEVSLLSAEGVLRHIPFPTDLAVIAQDGRWLLGEKALTALEAKAAPEGEH 66 Query: 41 SVGLVLAHLKPDLAFNVLHGNFGEDGLVQAILELLEIPYTHSGILASALSMDKMRSKQVV 100 L+ + D+ F +LHG FGEDG VQ LELL PY +G+ ASAL MDK SK+V+ Sbjct: 67 PFPPPLSWERYDVVFPLLHGRFGEDGTVQGFLELLGKPYVGAGVAASALCMDKDLSKRVL 126 Query: 101 SSCGVPVCPSILVNRFTMDSQHLISPPYVIKPLKGGSSLGIIVIKKDQSIPLDLLQSSSW 160 + GVPV P + R PP+ +KP GSS+GI +++ Q + L + Sbjct: 127 AQAGVPVVPWV-AVRKGEPPVVPFDPPFFVKPANTGSSVGISRVERFQDLE-AALALAFR 184 Query: 161 NHGDQLLIEQYVDGIELTCGVMGDASLDVTEIAV--PKSDFYSYELKYSSLNSTHVLPAK 218 ++ + EL GV+G+ + + + ++ FY YE KY+ + ++PA Sbjct: 185 YDEKAVVEKALSPVRELEVGVLGNVFGEASPVGEVRYEAPFYDYETKYTPGRAELLIPAP 244 Query: 219 IPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRKVFWLEINVQPGMTPVSIFPEMA 278 + + VQ LA A++ +G RG++R DF +++ E+N PG TP S++P + Sbjct: 245 LDPGTQETVQELALKAYKVLGVRGMARVDFFLA--EGELYLNELNTIPGFTPTSMYPRLF 302 Query: 279 AYAGYSFRELLLWMVEDA 296 G ++ ELL +VE A Sbjct: 303 EAGGVAYPELLRRLVELA 320 >1z2n_X Inositol 1,3,4-trisphosphate 5/6-kinase; inositol phosphate kinase, ATP-grAsp, transferase; HET: ADP; 1.20A {Entamoeba histolytica hm-1} PDB: 1z2o_X* 1z2p_X* Length = 324 Score = 148 bits (374), Expect = 1e-36 Identities = 37/320 (11%), Positives = 88/320 (27%), Gaps = 37/320 (11%) Query: 5 MGGISSEREVSLS-------SGKACASALEDAGFKVSQIDVDRSVGLVLAHLKP-DLAFN 56 +G +++++ VSL S F+++ I D ++ L +P + Sbjct: 3 LGSMTTKQTVSLFIWLPESKQKTLFISTKNHTQFELNNIIFDVTLSTELPDKEPNAIITK 62 Query: 57 VLHGNFGEDGLVQAILELLEIPYTHSGILASALSMDKMRSKQVVSSCGVPVCPSILVNRF 116 H ++ + + + ++ +P+ S V Sbjct: 63 RTHPVGKMADEMRKYEKDHPKVLFLESSAIHDMMSSREEINALLIKNNIPIPNSFSVKSK 122 Query: 117 TMDSQHL----ISPPYVIKPLKGGSSLGIIVIK-----KDQSIPLDLLQSSSWNHGDQLL 167 Q L + P+++KP + +K + + + + + Sbjct: 123 EEVIQLLQSKQLILPFIVKPENAQGTFNAHQMKIVLEQEGIDDIHFPCLCQHYINHNNKI 182 Query: 168 IEQYVDGIELTCGV-------------------MGDASLDVTEIAVPKSDFYSYELKYSS 208 ++ + G L + V Sbjct: 183 VKVFCIGNTLKWQTRTSLPNVHRCGIKSVDFNNQHLEDILSWPEGVIDKQDIIENSANRF 242 Query: 209 LNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRKVFWLEINVQPGM 268 + P + L E++ LA+ A+G + DF+ + +++NV P Sbjct: 243 GSKILEDPILLNLTSEAEMRDLAYKVRCALGV-QLCGIDFIKENEQGNPLVVDVNVFPSY 301 Query: 269 TPVSIFPEMAAYAGYSFREL 288 F + E+ Sbjct: 302 GGKVDFDWFVEKVALCYTEV 321 >2pvp_A D-alanine-D-alanine ligase; 2.40A {Helicobacter pylori SS1} Length = 367 Score = 136 bits (343), Expect = 5e-33 Identities = 71/337 (21%), Positives = 129/337 (38%), Gaps = 49/337 (14%) Query: 2 AVLMGGISSEREVSLSSGKACASALEDAGFKV----------------------SQIDVD 39 VL GG S E E+S+ S A L+D +QI Sbjct: 24 CVLFGGASFEHEISIVSAIALKGVLKDRIKYFIFLDENHHFYLIEESNMHSKYFAQIKEK 83 Query: 40 RSVGLVLAH-------------LKPDLAFNVLHGNFGEDGLVQAILELLEIPYTHSGILA 86 + L+L H ++ L N++HG GEDG + ++LE I + I A Sbjct: 84 KLPPLILTHNGLLKNSFLGAKIIELPLVINLVHGGDGEDGKLASLLEFYRIAFIGPRIEA 143 Query: 87 SALSMDKMRSKQVVSSCGVPVCPSILVNRFTMDS---QHLISPPYVIKPLKGGSSLGIIV 143 S LS +K +K G+ +L+N + + P+++KP GSSLG+ V Sbjct: 144 SVLSYNKYLTKLYAKDLGIKTLDYVLLNEKNRANALDLMNFNFPFIVKPSNAGSSLGVNV 203 Query: 144 IKKDQSIPLDLLQSSSWNHGDQLLIEQYVDGI---ELTCGVMGDASLDVTEIAVPKSDFY 200 +K+++ + S++ + ++LIE ++ G+ L + K +F Sbjct: 204 VKEEKELIY--ALDSAFEYSKEVLIEPFIQGVKEYNLAGCKIKKDFCFSYIEEPNKQEFL 261 Query: 201 SYELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRKVFWL 260 ++ KY + A + + ++++ + + I R DF +V+ Sbjct: 262 DFKQKYLDFSRNKAPKASLSNALEEQLKENFKKLYSDLFDGAIIRCDFFVI--ENEVYLN 319 Query: 261 EINVQPGMTPVSIFPEMAAYAGYSFRELLLWMVEDAS 297 EIN PG +F + + L + + Sbjct: 320 EINPIPGSLANYLFDDF----KTTLENLAQSLPKTPK 352 >2q7d_A Inositol-tetrakisphosphate 1-kinase; inositol kinase, ITPK1, inositol 1,3,4- 5/6-kinase, inositol phosphate, inositolphosphate, polyphosphate; HET: ANP; 1.60A {Homo sapiens} PDB: 2qb5_A* 2odt_X Length = 346 Score = 126 bits (316), Expect = 8e-30 Identities = 43/302 (14%), Positives = 98/302 (32%), Gaps = 33/302 (10%) Query: 6 GGISSEREVSLSSGKACASALEDAGFKVSQIDVDRSV-----GLVLAHLKPDLAFNVLHG 60 G SE+++ + +A A G +V Q+++ R + V+ H K Sbjct: 22 GYWLSEKKIKKLNFQAFAELCRKRGMEVVQLNLSRPIEEQGPLDVIIH-KLTDVILEADQ 80 Query: 61 NFGEDGLVQAILELLEIPYTHSGIL----ASALSMDKMRSKQVVSSCGVPV-------CP 109 N + + + + + +L A +D+ +S +++ + P Sbjct: 81 NDSQSLELVHRFQEYIDAHPETIVLDPLPAIRTLLDRSKSYELIRKIEAYMEDDRICSPP 140 Query: 110 SILVNRFTMDS------QHLISPPYVIKPLKGGSSLGIIVIKKDQ----SIPLDLLQSSS 159 + + D ++ ++ P++ K + + + + Sbjct: 141 FMELTSLCGDDTMRLLEKNGLTFPFICKTRVAHGTNSHEMAIVFNQEGLNAIQPPCVVQN 200 Query: 160 WNHGDQLLIEQYVDGIELTCGVM-----GDASLDVTEIAVPKSDFYSYELKYSSLNSTHV 214 + + + +L + +V G T A E S S S L Sbjct: 201 FINHNAVLYKVFVVGESYTVVQRPSLKNFSAGTSDRESIFFNSHNVSKPESSSVLTELDK 260 Query: 215 LPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRKVFWLEINVQPGMTPVSIF 274 + + ++ L+ QA+G + D + + + + ++IN PG VS F Sbjct: 261 IEGVFERPSDEVIRELSRALRQALGVS-LFGIDIIINNQTGQHAVIDINAFPGYEGVSEF 319 Query: 275 PE 276 Sbjct: 320 FT 321 >1pk8_A RAT synapsin I; ATP binding, ATP grAsp, calcium (II) ION, membrane protein; HET: ATP; 2.10A {Rattus norvegicus} SCOP: c.30.1.5 d.142.1.3 PDB: 1px2_A* Length = 422 Score = 88.5 bits (219), Expect = 1e-18 Identities = 36/257 (14%), Positives = 74/257 (28%), Gaps = 29/257 (11%) Query: 23 ASALEDAGFKVSQIDVDRSVGLVLAHLKPDLAFNVLHGNF-GEDGLVQAILELLEIPYTH 81 A + GF V ++V R+ V+ LKPD H +G ++++ L+ Y Sbjct: 154 LVAHANGGFSVD-MEVLRNGVKVVRSLKPDFVLIRQHAFSMARNGDYRSLVIGLQ--YAG 210 Query: 82 SGILASALSMDKMRSKQVVSS-----CGVPVCPSILVNRFTMDSQHLISP-----PYVIK 131 + S S+ K V + + T H P V+K Sbjct: 211 IPSVNSLHSVYNFCDKPWVFAQMVRLHKKLGTEEFPLIDQTFYPNHKEMLSSTTYPVVVK 270 Query: 132 PLKGGSSLGIIVIKKDQSIPLDLLQSSSWNHGDQLLIEQYVDGI-ELTCGVMGDASLDVT 190 S +G + + + S E ++D ++ +G Sbjct: 271 MGHAHSGMGKVKVDNQHD--FQDIASVVALTKTYATAEPFIDAKYDVRVQKIGQNYKAYM 328 Query: 191 EIAVPKSDFYSYELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLF 250 ++ + N+ + +I + + + G I + L Sbjct: 329 RT-SVSGNWKT--------NTGSAMLEQIAMS--DRYKLWVDTCSEIFGGLDICAVEALH 377 Query: 251 DPLSRKVFWLEINVQPG 267 + +E+ Sbjct: 378 GK-DGRDHIIEVVGSSM 393 >2p0a_A Synapsin-3, synapsin III; neurotransmitter release, schizophrenia, vesicle transport, structural genomics, structural genomics consortium, SGC; HET: ANP; 1.90A {Homo sapiens} Length = 344 Score = 75.6 bits (185), Expect = 1e-14 Identities = 28/283 (9%), Positives = 70/283 (24%), Gaps = 28/283 (9%) Query: 24 SALEDAGFKVSQIDVDRSVGLVLAHLKPDLAFNVLHGNFGEDGLVQ-AILELLE---IPY 79 +A G V V +V KPD H G +++ L+ +P Sbjct: 59 AAYVTGGCMVDMQVVRNGTKVVSRSFKPDFILVRQHAYSMALGEDYRSLVIGLQYGGLPA 118 Query: 80 THSGILASALSMDKMRSKQVVSSCGVPVCPSILVNR------FTMDSQHLISPPYVIKPL 133 +S + + K + + P P V+K Sbjct: 119 VNS-LYSVYNFCSKPWVFSQLIKIFHSLGPEKFPLVEQTFFPNHKPMVTAPHFPVVVKLG 177 Query: 134 KGGSSLGIIVIKKDQSIPLDLLQSSSWNHGDQLLIEQYVDGIELTCGVMGDASLDVTEIA 193 + +G I ++ + S E ++D ++ Sbjct: 178 HAHAGMGKIKVENQLDFQD--ITSVVAMAKTYATTEAFIDSKYDIRIQKIGSNYKAYMRT 235 Query: 194 VPKSDFYSYELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPL 253 ++ + + + + + + G I + Sbjct: 236 SISGNWKANTGSAML----------EQVAMTERYRLWVDSCSEMFGGLDICAVKAVHSK- 284 Query: 254 SRKVFWLEINVQPGMTPVSIFPEMAAYAGYSFRELLLWMVEDA 296 + + +E+ + + + E +L++ + Sbjct: 285 DGRDYIIEVMD----SSMPLIGEHVEEDRQLMADLVVSKMSQL 323 >3hbl_A Pyruvate carboxylase; TIM barrel, ligase; HET: BTI ADP; 2.71A {Staphylococcus aureus subsp} PDB: 3bg5_A* 3ho8_A* 3hb9_A* Length = 1150 Score = 58.5 bits (141), Expect = 2e-09 Identities = 29/184 (15%), Positives = 70/184 (38%), Gaps = 21/184 (11%) Query: 92 DKMRSKQVVSSCGVPVCPSILVNRFTMDSQHL------ISPPYVIKPLKGGSSLGIIVIK 145 DK++++ +PV P + + P +IK GG G+ +++ Sbjct: 118 DKVKARTTAIKADLPVIPGT--DGPIKSYELAKEFAEEAGFPLMIKATSGGGGKGMRIVR 175 Query: 146 KDQSIPLDLLQSSS----WNHGDQLLIEQYVDG-IELTCGVMGDASLDVTEIAVPKSDFY 200 ++ + ++ S ++ IE+Y+D + V+GD ++ + + + D Sbjct: 176 EESELEDAFHRAKSEAEKSFGNSEVYIERYIDNPKHIEVQVIGDEHGNI--VHLFERDC- 232 Query: 201 SYELKYSSLNSTHVLPA-KIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRKVFW 259 ++ V P+ + + + + A + I +FL + F+ Sbjct: 233 --SVQRRHQKVVEVAPSVGLSPTLRQRICDAAIQLMENIKYVNAGTVEFLVSG--DEFFF 288 Query: 260 LEIN 263 +E+N Sbjct: 289 IEVN 292 >2qf7_A Pyruvate carboxylase protein; multi-domain, multi-functional, biotin-dependent, ligase; HET: KCX COA SAP; 2.00A {Rhizobium etli cfn 42} Length = 1165 Score = 55.5 bits (133), Expect = 1e-08 Identities = 33/186 (17%), Positives = 71/186 (38%), Gaps = 21/186 (11%) Query: 91 MDKMRSKQVVSSCGVPVCPSILVNRFTMDSQHL------ISPPYVIKPLKGGSSLGIIVI 144 +K+ ++ + S GVPV P+ D + I P ++K GG G+ VI Sbjct: 133 GNKVAARNLAISVGVPVVPA--TEPLPDDMAEVAKMAAAIGYPVMLKASWGGGGRGMRVI 190 Query: 145 KKDQSIPLDLLQ----SSSWNHGDQLLIEQYVDG---IELTCGVMGDASLDVTEIAVPKS 197 + + + ++ + + + D++ +E+ V+ +E ++GD +V + Sbjct: 191 RSEADLAKEVTEAKREAMAAFGKDEVYLEKLVERARHVESQ--ILGDTHGNVVHLFERDC 248 Query: 198 DFYSYELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRKV 257 K L +E+ + A G ++L D + K Sbjct: 249 SVQRRNQKVVERAPAPYLSE----AQRQELAAYSLKIAGATNYIGAGTVEYLMDADTGKF 304 Query: 258 FWLEIN 263 +++E+N Sbjct: 305 YFIEVN 310 >1uc8_A LYSX, lysine biosynthesis enzyme; alpha-aminoadipate pathway, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.00A {Thermus thermophilus} SCOP: c.30.1.6 d.142.1.7 PDB: 1uc9_A* Length = 280 Score = 53.0 bits (126), Expect = 7e-08 Identities = 45/293 (15%), Positives = 82/293 (27%), Gaps = 33/293 (11%) Query: 2 AVLMGGISSEREVSLSSGKACASALEDAGFKVSQIDVDR-SVGLVLAHLKPDLAFNVLHG 60 A+L I + + E G ++ V + L + + L Sbjct: 3 AILYDRIRPD-------ERMLFERAEALGLPYKKVYVPALPMVLGERPKELEGVTVALER 55 Query: 61 NFG--EDGLVQAILELLEIPYTHSGILASALSMDKMRSKQVVSSCGVPVCPSILVNRFTM 118 L L IP + DK + ++ G+P + L Sbjct: 56 CVSQSRGLAAARYLTALGIPVVNR-PEVIEACGDKWATSVALAKAGLPQPKTALATDREE 114 Query: 119 DSQHLISP--PYVIKPLKGGSSLGIIVIKKDQSIPLDLLQSS--SWNHGDQLLIEQYVDG 174 + + + P V+KP+ G I++YV+ Sbjct: 115 ALRLMEAFGYPVVLKPVIGSWGRLXXXXXXXXXXXXXXXXXXVLGGFQHQLFYIQEYVEK 174 Query: 175 IELTCGVMGDASLDVTEIAVPKSDFYSYELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLA 234 V + I + + + + + + +EV RL+ A Sbjct: 175 PGRDIRVFVVGERAIAAIYRRSAHWITNTARGGQAENCP---------LTEEVARLSVKA 225 Query: 235 HQAIGCRGISRSDFLFDPLSRKVFWLEINVQPGM------TPVSIFPEMAAYA 281 +A+G G+ D R + E+N T V I E+ YA Sbjct: 226 AEAVGG-GVVAVDLFESE--RGLLVNEVNHTMEFKNSVHTTGVDIPGEILKYA 275 >1ulz_A Pyruvate carboxylase N-terminal domain; biotin carboxylase, ligase; 2.20A {Aquifex aeolicus VF5} SCOP: b.84.2.1 c.30.1.1 d.142.1.2 Length = 451 Score = 51.0 bits (122), Expect = 3e-07 Identities = 46/240 (19%), Positives = 87/240 (36%), Gaps = 20/240 (8%) Query: 36 IDVDRSVGLVLAHLKPDLAFNVLHGNFGEDGLVQAILELLEIPYTHSGILASALSMDKMR 95 ++ R + + + D G E+ + E I + L DK R Sbjct: 60 LNKQRIIN-LALEVGADAIHPGY-GFLAENAEFAKMCEEAGITFIGPHWKVIELMGDKAR 117 Query: 96 SKQVVSSCGVPVCPSILVNRFTMDSQHL------ISPPYVIKPLKGGSSLGIIVIKKDQS 149 SK+V+ GVPV P + + I P ++K GG GI + + ++ Sbjct: 118 SKEVMKKAGVPVVPGS--DGVLKSLEEAKALAREIGYPVLLKATAGGGGRGIRICRNEEE 175 Query: 150 IPLDLLQ----SSSWNHGDQLLIEQYVDG-IELTCGVMGDASLDVTEIAVPKSDFYSYEL 204 + + Q + LL+E++++ + V+GD +V I + + D S + Sbjct: 176 LVKNYEQASREAEKAFGRGDLLLEKFIENPKHIEYQVLGDKHGNV--IHLGERD-CSIQR 232 Query: 205 KYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRKVFWLEINV 264 + L P + + + A + IG +F+ D F +E+N Sbjct: 233 RNQKLVEIAPSLILTP-EKREYYGNIVTKAAKEIGYYNAGTMEFIADQEGNLYF-IEMNT 290 >3ouz_A Biotin carboxylase; structural genomics, center for structural genomics of infec diseases, csgid, alpha-beta fold, cytosol, LIG; HET: MSE ADP SRT TLA; 1.90A {Campylobacter jejuni subsp} Length = 446 Score = 50.5 bits (121), Expect = 5e-07 Identities = 45/221 (20%), Positives = 84/221 (38%), Gaps = 16/221 (7%) Query: 60 GNFGEDGLVQAILELLEIPYTHSGILASALSMDKMRSKQVVSSCGVPVCPSILVNRFTMD 119 G E+ I I + + A L DK ++KQV+ GVPV P + Sbjct: 87 GFLSENQNFVEICAKHNIKFIGPSVEAMNLMSDKSKAKQVMQRAGVPVIPGSDGALAGAE 146 Query: 120 SQHLISP----PYVIKPLKGGSSLGIIVIKKDQSIPLDLLQ----SSSWNHGDQLLIEQY 171 + ++ P ++K GG G+ V++ ++ + + + + +E+Y Sbjct: 147 AAKKLAKEIGYPVILKAAAGGGGRGMRVVENEKDLEKAYWSAESEAMTAFGDGTMYMEKY 206 Query: 172 VDG-IELTCGVMGDASLDVTEIAVPKSDFYSYELKYSSLNSTHVLPA-KIPLDIYKEVQR 229 + + V+GD+ +V I V + D ++ PA + + Sbjct: 207 IQNPRHIEVQVIGDSFGNV--IHVGERD---CSMQRRHQKLIEESPAILLDEKTRTRLHE 261 Query: 230 LAFLAHQAIGCRGISRSDFLFDPLSRKVFWLEINVQPGMTP 270 A A +AIG G +FL D F +E+N + + Sbjct: 262 TAIKAAKAIGYEGAGTFEFLVDKNLDFYF-IEMNTRLQVEH 301 >3df7_A Putative ATP-grAsp superfamily protein; putative protein, PSI-II, nysgrc., structural genomics, protein structure initiative; 1.87A {Archaeoglobus fulgidus} Length = 305 Score = 49.8 bits (118), Expect = 8e-07 Identities = 36/242 (14%), Positives = 75/242 (30%), Gaps = 42/242 (17%) Query: 50 KPDLAFNVLHGNFGEDGLVQAILELLEIPYTHSGILASALSMDKMRSKQVVSSCGVPVCP 109 K D + + + E S A A++ DK + + Sbjct: 69 KSDAFLIIAPEDDFLLYTLTKKAEK-YCENLGSSSRAIAVTSDKWELYKKLRGEVQVPQT 127 Query: 110 SILVNRFTMDSQHLISPPYVIKPLKGGSSLGIIVIKKDQSIPLDLLQSSSWNHGDQLLIE 169 S+ ++IKP + GI D + + Sbjct: 128 SLRPLDC----------KFIIKPRTACAGEGIGFS---------------DEVPDGHIAQ 162 Query: 170 QYVDGIELTCGVMGDASLDVTEIAVPKSDFYSYELKYSSLNSTHVLPAKIPLDIYKEVQR 229 ++++GI L+ + + + + + Y + V+PA+I ++ +EV Sbjct: 163 EFIEGINLSVSLAVGEDVKCLSVNEQIINNFRY--------AGAVVPARISDEVKREVVE 214 Query: 230 LAFLAHQAIG-CRGISRSDFLFDPLSRKVFWLEINVQPGMTPVSIFPEMAAYAGYSFREL 288 A A + + G D ++ + + +EIN + + G S +L Sbjct: 215 EAVRAVECVEGLNGYVGVDIVYSD---QPYVIEINARLTTP----VVAFSRAYGASVADL 267 Query: 289 LL 290 L Sbjct: 268 LA 269 >2pff_B Fatty acid synthase subunit beta; fatty acid synthase, acyl-carrier-protein, beta-ketoacyl reductase, beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces cerevisiae} Length = 2006 Score = 44.5 bits (105), Expect = 3e-05 Identities = 30/148 (20%), Positives = 47/148 (31%), Gaps = 55/148 (37%) Query: 10 SEREVSLSSGKACASA------LEDAGFKVSQIDVDRSVGLVLAHLKP---DLAFNVLHG 60 SER++ S+ ++ L A I+ D LV ++ D+ V Sbjct: 410 SERKLKFSNRFLPVASPFHSHLLVPA---SDLINKD----LVKNNVSFNAKDIQIPVYDT 462 Query: 61 NFGED----------GLVQAILEL-------LEIPYTH---------SGILASALSMDKM 94 G D +V I+ L + TH SG+ L+ Sbjct: 463 FDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGL--GVLT---H 517 Query: 95 RSKQVVSSCGVPVCPSILVNRFTMDSQH 122 R+K GV V I+ T+D Sbjct: 518 RNKD---GTGVRV---IVAG--TLDINP 537 Score = 36.1 bits (83), Expect = 0.009 Identities = 55/390 (14%), Positives = 99/390 (25%), Gaps = 184/390 (47%) Query: 5 MGGISSEREVSLSSGK------------ACASALEDAGFKVS---------QIDVDRSV- 42 M S+ R ++LS G AS L++ F D + Sbjct: 1 MDAYST-RPLTLSHGSLEHVLLVPTASFFIASQLQEQ-FNKILPEPTEGFAADDEPTTPA 58 Query: 43 -------GLVLAHLKPDLAFNVLHGNFGEDGLVQAILELL------------EIPYTHSG 83 G V + ++P + G +L L +I H+ Sbjct: 59 ELVGKFLGYVSSLVEPS-----------KVGQFDQVLNLCLTEFENCYLEGNDI---HA- 103 Query: 84 ILASALSMDKMRSKQVVSSCGVPVCPSILVNRFTMDSQHLISPPYVIKPLKGGSSLGIIV 143 LA+ L + + + ++ N T ++ + P+ K +S Sbjct: 104 -LAAKLLQE--------NDTTLVKTKELIKNYIT--ARIMAKRPFD----KKSNSA---- 144 Query: 144 IKKDQSIPLDLLQSSSWNH-------GDQLLIEQYVDGIEL----------------TCG 180 L ++ + G Q + Y + EL Sbjct: 145 ----------LFRAVGEGNAQLVAIFGGQGNTDDYFE--ELRDLYQTYHVLVGDLIKFSA 192 Query: 181 VM--------GDAS------LDV-----TEIAVPKSDFYSYELKYSSLNSTHV-LPAKIP 220 DA L++ P D+ L S + P I Sbjct: 193 ETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDY---------LLSIPISCPL-IG 242 Query: 221 LDIYKEVQRLAFLAHQAIGCR-----------------G----------ISRSDFL--FD 251 + +Q LAH + + G I+ +D F Sbjct: 243 V-----IQ----LAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFF 293 Query: 252 PLSRKV----FWLEINVQPGMTPVSIFPEM 277 RK F++ + S+ P + Sbjct: 294 VSVRKAITVLFFIGVRCYEAYPNTSLPPSI 323 Score = 34.1 bits (78), Expect = 0.036 Identities = 46/291 (15%), Positives = 86/291 (29%), Gaps = 147/291 (50%) Query: 62 FGEDGLVQAILELLEIPYTHSGILASALSMDKMRSKQVVSSCGVPV---------CPSIL 112 D L++ E L S ++ + L +K+ ++ G+ + P Sbjct: 183 LVGD-LIKFSAETL------SELIRTTLDAEKVFTQ------GLNILEWLENPSNTP--- 226 Query: 113 VNRFTMDSQHLISPP-------------YVI-------KP------LKG--GSSLGIIV- 143 D +L+S P YV+ P LKG G S G++ Sbjct: 227 ------DKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTA 280 Query: 144 ---------------IKK-----------------DQSIPLDLLQSSSWNHG-------- 163 ++K + S+P +L+ S + Sbjct: 281 VAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILE-DSLENNEGVPSPML 339 Query: 164 -------DQLLIEQYVD------------GIELTCGVMGDASLDVTEIAVPKSDFYSYEL 204 +Q+ + YV+ I L V G +L V+ P+S Y L Sbjct: 340 SISNLTQEQV--QDYVNKTNSHLPAGKQVEISL---VNGAKNLVVS--GPPQS-LYGLNL 391 Query: 205 KYSSL-NSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLS 254 + + ++IP +R +++ FL P++ Sbjct: 392 TLRKAKAPSGLDQSRIPFS-----ERKLKFSNR-----------FL--PVA 424 Score = 33.0 bits (75), Expect = 0.083 Identities = 31/172 (18%), Positives = 60/172 (34%), Gaps = 62/172 (36%) Query: 146 KDQSIPLDLLQSSS-----WNHGDQLLIEQY----VD-----GIELTCGVMGDASLDVTE 191 ++Q + +DL ++S WN D + Y +D + LT G+ + E Sbjct: 1627 QEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRE 1686 Query: 192 IAVPKSDFYSYELKYSSLNSTHVLPAKIPLD-IYKEVQR----LAFLAHQAIGCRGISRS 246 YS++ ++ K+ + I+KE+ F + + + +S + Sbjct: 1687 -------------NYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGL----LSAT 1729 Query: 247 DFLFDPLSRKVFWLEINVQPGMTPVS-----------IFPEMAAYAGYSFRE 287 F QP +T + + P A +AG+S E Sbjct: 1730 QF---------------TQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGE 1766 >2vpq_A Acetyl-COA carboxylase; bacteria, ATP-grAsp domain, biotin carboxylase, ligase; HET: ANP; 2.1A {Staphylococcus aureus} Length = 451 Score = 41.4 bits (97), Expect = 2e-04 Identities = 33/192 (17%), Positives = 71/192 (36%), Gaps = 29/192 (15%) Query: 89 LSMDKMRSKQVVSSCGVPVCPSILVNRFTMDSQHL------ISPPYVIKPLKGGSSLGII 142 K +K + VPV P + D I P +IK GG GI Sbjct: 111 KMGIKDVAKAEMIKANVPVVPGS--DGLMKDVSEAKKIAKKIGYPVIIKATAGGGGKGIR 168 Query: 143 VIKK----DQSIPLDLLQSSSWNHGDQLLIEQYVDG-IELTCGVMGDASLDVTEIAVPKS 197 V + + + ++ + L +E++++ + ++GD+ +V I + + Sbjct: 169 VARDEKELETGFRMTEQEAQTAFGNGGLYMEKFIENFRHIEIQIVGDSYGNV--IHLGER 226 Query: 198 DFYSYELKYSSLNSTH-----VLPAK-IPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFD 251 D ++ P+ + + +E+ A A +A+ +F++D Sbjct: 227 D--------CTIQRRMQKLVEEAPSPILDDETRREMGNAAVRAAKAVNYENAGTIEFIYD 278 Query: 252 PLSRKVFWLEIN 263 K +++E+N Sbjct: 279 LNDNKFYFMEMN 290 >3lp8_A Phosphoribosylamine-glycine ligase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ALS collaborative crystallography; 2.15A {Ehrlichia chaffeensis} Length = 442 Score = 41.5 bits (97), Expect = 3e-04 Identities = 21/130 (16%), Positives = 47/130 (36%), Gaps = 9/130 (6%) Query: 64 EDGLVQAILELLE---IPYTHSGILASALSMDKMRSKQVVSSCGVPVCPSILVNRFTMDS 120 E L+ + + L I A+ L K +K++ G+P Sbjct: 92 ETPLMNGLSDALTEEGILVFGPSKAAARLESSKGFTKELCMRYGIPTAKYGYFVDTNSAY 151 Query: 121 QHLI--SPPYVIKPLKGGSSLGIIVIKKDQ----SIPLDLLQSSSWNHGDQLLIEQYVDG 174 + + P V+K G ++ + ++ L+ G ++IE++++G Sbjct: 152 KFIDKHKLPLVVKADGLAQGKGTVICHTHEEAYNAVDAMLVHHKFGEAGCAIIIEEFLEG 211 Query: 175 IELTCGVMGD 184 E++ + D Sbjct: 212 KEISFFTLVD 221 >1a9x_A Carbamoyl phosphate synthetase (large chain); amidotransferase, thioester; HET: CYG ADP; 1.80A {Escherichia coli} SCOP: a.92.1.1 c.24.1.1 c.30.1.1 c.30.1.1 d.142.1.2 d.142.1.2 PDB: 1ce8_A* 1m6v_A* 1c30_A* 1bxr_A* 1c3o_A* 1cs0_A* 1jdb_B* 1kee_A* 1t36_A* Length = 1073 Score = 39.5 bits (92), Expect = 0.001 Identities = 32/212 (15%), Positives = 71/212 (33%), Gaps = 21/212 (9%) Query: 92 DKMRSKQVVSSCGVPVCPSILVNRFT--MDSQHLISPPYVIKPLKGGSSLGIIVIKKDQS 149 D+ R + G+ S + + + + P +I+P G + + Sbjct: 128 DRRRFDVAMKKIGLETARSGIAHTMEEALAVAADVGFPCIIRPSFTMGGSGGGIAYNREE 187 Query: 150 IPLDLLQSSSWNHGDQLLIEQYVDG---IELTCGVMGDASLDVTEIAVPKSDFYSYELKY 206 + + +LLI++ + G E+ + I V + + Sbjct: 188 FEEICARGLDLSPTKELLIDESLIGWKEYEMEV----VRDKNDNCIIVCSIE-NFDAMGI 242 Query: 207 SSLNSTHVLPAK-IPLDIYKEVQRLAFLAHQAIGCRGISRS-DFLFDPLSRKVFWLEINV 264 + +S V PA+ + Y+ ++ + + IG + F +P + ++ +E+N Sbjct: 243 HTGDSITVAPAQTLTDKEYQIMRNASMAVLREIGVETGGSNVQFAVNPKNGRLIVIEMNP 302 Query: 265 QP--------GMTPVSIFPEMA-AYAGYSFRE 287 + T I A GY+ E Sbjct: 303 RVSRSSALASKATGFPIAKVAAKLAVGYTLDE 334 >2cqy_A Propionyl-COA carboxylase alpha chain, mitochondrial; PCCA, B domain, structural genomics, NPPSFA; NMR {Homo sapiens} Length = 108 Score = 37.8 bits (87), Expect = 0.003 Identities = 23/97 (23%), Positives = 38/97 (39%), Gaps = 9/97 (9%) Query: 87 SALSM-DKMRSKQVVSSCGVPVCPSILVNRFTMDSQHLIS----PPYVIKPLKGGSSLGI 141 S+ S DK+ SK + V P + I+ P +IK GG G+ Sbjct: 2 SSGSSGDKIESKLLAKKAEVNTIPGFDGVVKDAEEAVRIAREIGYPVMIKASAGGGGKGM 61 Query: 142 IVIKKDQSIPLDLLQ----SSSWNHGDQLLIEQYVDG 174 + D+ ++S D+LLIE+++D Sbjct: 62 RIAWDDEETRDGFRLSSQEAASSFGDDRLLIEKFIDN 98 >3n6r_A Propionyl-COA carboxylase, alpha subunit; protein complex, biotin-dependent carboxylase, ligase; HET: BTI; 3.20A {Ruegeria pomeroyi} Length = 681 Score = 37.6 bits (87), Expect = 0.003 Identities = 22/104 (21%), Positives = 39/104 (37%), Gaps = 13/104 (12%) Query: 92 DKMRSKQVVSSCGVPVCPSILVNRFTMDSQHL------ISPPYVIKPLKGGSSLGIIVIK 145 DK+ SK++ V P D+ I P +IK GG G+ + Sbjct: 115 DKITSKKIAQEANVSTVPGY--MGLIEDADEAVKISNQIGYPVMIKASAGGGGKGMRIAW 172 Query: 146 KDQSIPL----DLLQSSSWNHGDQLLIEQYVDG-IELTCGVMGD 184 DQ ++++ D++ IE++V + V+ D Sbjct: 173 NDQEAREGFQSSKNEAANSFGDDRIFIEKFVTQPRHIEIQVLCD 216 >3jrx_A Acetyl-COA carboxylase 2; BC domain, soraphen A, alternative splicing, ATP-binding, biotin, fatty acid biosynthesis, ligase, lipid synthesis; HET: S1A; 2.50A {Homo sapiens} PDB: 3jrw_A* Length = 587 Score = 33.9 bits (77), Expect = 0.046 Identities = 31/187 (16%), Positives = 63/187 (33%), Gaps = 4/187 (2%) Query: 77 IPYTHSGILASALSMDKMRSKQVVSSCGVPVCPSILVNRFTMDSQHLISPPYVIKPLKGG 136 +P++ SG+ D + K++ V + +++ I P +IK +GG Sbjct: 196 LPWSGSGLTVEWTEDDLQQGKRISVPEDVYDKGCVKDVDEGLEAAERIGFPLMIKASEGG 255 Query: 137 SSLGIIVIKKDQSIPLDLLQSSSWNHGDQLLIEQYVDGIELTCGVMGDASLDVTEIAVPK 196 GI + + P+ Q S G + + + + D AV Sbjct: 256 GGKGIRKAESAEDFPILFRQVQSEIPGSPIFLMKLAQHAR---HLEVQILADQYGNAVSL 312 Query: 197 SDFYSYELKYSSLNSTHVLPAKIPLDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRK 256 + PL I++ +++ A + +G ++L+ Sbjct: 313 FGRDCSIQRRHQKIVEEAPATIAPLAIFEFMEQCAIRLAKTVGYVSAGTVEYLYSQDGSF 372 Query: 257 VFWLEIN 263 F LE+N Sbjct: 373 HF-LELN 378 >2dzd_A Pyruvate carboxylase; biotin carboxylase, ligase; 2.40A {Geobacillus thermodenitrificans} Length = 461 Score = 29.2 bits (65), Expect = 1.3 Identities = 16/105 (15%), Positives = 43/105 (40%), Gaps = 9/105 (8%) Query: 89 LSMDKMRSKQVVSSCGVPVCPSILVNRFTMD----SQHLISPPYVIKPLKGGSSLGIIVI 144 + DK++++ + G+PV P ++ P +IK GG G+ ++ Sbjct: 117 MFGDKVKARHAAVNAGIPVIPGSDGPVDGLEDVVAFAEAHGYPIIIKAALGGGGRGMRIV 176 Query: 145 KKDQSIPLDLLQ----SSSWNHGDQLLIEQYVDG-IELTCGVMGD 184 + + + + + D++ +E+ ++ + ++GD Sbjct: 177 RSKSEVKEAFERAKSEAKAAFGSDEVYVEKLIENPKHIEVQILGD 221 >2cdq_A Aspartokinase; aspartate kinase, amino acid metabolism, ACT domain, allostery, S-adenosylmethionine, lysine, allosteric effector, plant; HET: TAR SAM LYS; 2.85A {Arabidopsis thaliana} SCOP: c.73.1.3 d.58.18.10 d.58.18.10 Length = 510 Score = 28.3 bits (62), Expect = 1.9 Identities = 16/72 (22%), Positives = 27/72 (37%), Gaps = 6/72 (8%) Query: 24 SALEDAGFKV---SQIDVDRSVGLVLAHLKPDLAFNVLHGNFGEDGLVQAILELLEIPYT 80 L G V SQ ++ ++ + + LH +F E G + ELL P Sbjct: 441 HVLYTKGVNVQMISQGASKVNISFIVNEAEAEGCVQALHKSFFESG---DLSELLIQPRL 497 Query: 81 HSGILASALSMD 92 +G L ++ Sbjct: 498 GNGSPVRTLQVE 509 >2vob_A Trypanothione synthetase; ligase; 2.3A {Leishmania major} PDB: 2vps_A 2vpm_A Length = 652 Score = 27.9 bits (62), Expect = 3.0 Identities = 11/59 (18%), Positives = 21/59 (35%), Gaps = 4/59 (6%) Query: 112 LVNRFTMDSQHLISPPYVIKPLKGGSSLGIIVIKKDQSIPLDLLQSSSWNHGDQLLIEQ 170 ++ + L Y KP+ G +I+ D + S +G + +I Q Sbjct: 529 ILKAEYELTDELRKHGYAKKPIVGRVGSNVIITSGDGVV----HAESGGKYGKRNMIYQ 583 >3ocj_A Putative exported protein; structural genomics, PSI-2, protein structure initiative, MI center for structural genomics, MCSG; HET: PLM; 1.39A {Bordetella parapertussis} Length = 305 Score = 27.5 bits (60), Expect = 3.9 Identities = 13/51 (25%), Positives = 24/51 (47%), Gaps = 3/51 (5%) Query: 3 VLMGGISSEREVSLSSGKACASALEDAGFKVSQIDVDRS--VGLVLAHLKP 51 ++ + R +L + + LE+AGF + + DR+ V+A KP Sbjct: 255 LVFTRLIQPRWNALRTHAQTRAQLEEAGFTDLRFEDDRARLFPTVIAR-KP 304 >2p8u_A Hydroxymethylglutaryl-COA synthase, cytoplasmic; hydromethylglutaryl COA, mevalonate pathway, structural genomics, structural genomics consortium; HET: COA; 2.00A {Homo sapiens} Length = 478 Score = 27.1 bits (59), Expect = 5.4 Identities = 10/64 (15%), Positives = 15/64 (23%), Gaps = 10/64 (15%) Query: 8 ISSEREVSLSSG-KACASALEDAGFKVSQIDVDRSVGLVLAHLKPDLAF----NVLHGNF 62 ++RE S + +E I L + L F Sbjct: 66 FCTDREDINSLCMTVVQNLMERNNLSYDCIGR-----LEVGTETIIDKSKSVKTNLMQLF 120 Query: 63 GEDG 66 E G Sbjct: 121 EESG 124 >2dtx_A Glucose 1-dehydrogenase related protein; rossmann fold, oxidoreductase; HET: BMA; 1.60A {Thermoplasma acidophilum} PDB: 2dtd_A* 2dte_A* 2zk7_A Length = 264 Score = 26.4 bits (58), Expect = 7.8 Identities = 12/59 (20%), Positives = 22/59 (37%), Gaps = 9/59 (15%) Query: 19 GKACASALEDAGFKVSQIDVDRSVGLVLAHLKPDL--------AFNVLHGNFGE-DGLV 68 G+A A D G KV + + H++ D+ + + + +G LV Sbjct: 21 GRAIAERFVDEGSKVIDLSIHDPGEAKYDHIECDVTNPDQVKASIDHIFKEYGSISVLV 79 >1m0w_A Glutathione synthetase; amine/carboxylate ligase, structural genomics, PSI, protein structure initiative; HET: ANP 3GC; 1.80A {Saccharomyces cerevisiae} SCOP: c.30.1.4 d.142.1.6 PDB: 1m0t_A* Length = 491 Score = 26.4 bits (58), Expect = 7.9 Identities = 12/45 (26%), Positives = 16/45 (35%), Gaps = 3/45 (6%) Query: 221 LDIYKEVQRLAFLAHQAIGCRGISRSDFLFDPLSRKVFW--LEIN 263 +Y + A Q GI RSD+L D +E N Sbjct: 105 WSLYLATLKSAQYKKQNFRL-GIFRSDYLIDKKKGTEQIKQVEFN 148 >3p0b_A TT1467 protein; glycoside hydrolase GH57, glycogen branching, transferase; 1.35A {Thermus thermophilus} PDB: 1ufa_A Length = 540 Score = 26.3 bits (57), Expect = 9.4 Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 3/31 (9%) Query: 44 LVL-AHLKPDLAFNVLHGNFGEDGLVQAILE 73 LVL AHL P + + FGE+ L +A+ E Sbjct: 26 LVLHAHL-PYVRAHG-MWPFGEETLYEAMAE 54 >2io8_A Bifunctional glutathionylspermidine synthetase/amidase; ligase, hydrolase; HET: ADP; 2.10A {Escherichia coli} SCOP: c.30.1.7 d.3.1.15 d.142.1.8 PDB: 2io7_A* 2io9_A* 2ioa_A* 2iob_A Length = 619 Score = 26.0 bits (57), Expect = 9.9 Identities = 11/52 (21%), Positives = 22/52 (42%), Gaps = 4/52 (7%) Query: 119 DSQHLISPPYVIKPLKGGSSLGIIVIKKDQSIPLDLLQSSSWNHGDQLLIEQ 170 + L+ Y +KP+ G I ++ + ++L +S +Q I Q Sbjct: 521 VNDELVKTGYAVKPIAGRCGSNIDLVSHHE----EVLDKTSGKFAEQKNIYQ 568 Database: pdb70 Posted date: Jan 26, 2011 11:21 AM Number of letters in database: 5,693,230 Number of sequences in database: 24,244 Lambda K H 0.320 0.137 0.401 Gapped Lambda K H 0.267 0.0500 0.140 Matrix: BLOSUM62 Gap Penalties: Existence: 11, Extension: 1 Number of Sequences: 24244 Number of Hits to DB: 2,521,092 Number of extensions: 110982 Number of successful extensions: 467 Number of sequences better than 10.0: 1 Number of HSP's gapped: 425 Number of HSP's successfully gapped: 47 Length of query: 300 Length of database: 5,693,230 Length adjustment: 92 Effective length of query: 208 Effective length of database: 3,462,782 Effective search space: 720258656 Effective search space used: 720258656 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: 56 (25.9 bits)