RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013498
(442 letters)
>3rmj_A 2-isopropylmalate synthase; LEUA, truncation, neisseria MENI TIM
barrel, catalytic domain, dimer, leucine biosynthesis,
ketoisovalerate; 1.95A {Neisseria meningitidis}
Length = 370
Score = 665 bits (1719), Expect = 0.0
Identities = 206/363 (56%), Positives = 251/363 (69%), Gaps = 15/363 (4%)
Query: 71 PNRIPDPNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDF 130
P + N V +FDTTLRDGEQSPGA +T +EK+ +ARQL KLGVDIIEAGF AAS DF
Sbjct: 4 PFTMTQTNRVIIFDTTLRDGEQSPGAAMTKEEKIRVARQLEKLGVDIIEAGFAAASPGDF 63
Query: 131 EAVRTIAKEVGNAVDAESGYVPVICGLSRCNERDIKTAWEAVKYAKRPRIHTFIATSGIH 190
EAV IAK + +C LSR ERDI+ A EAV A + RIHTFIATS IH
Sbjct: 64 EAVNAIAKTITK---------STVCSLSRAIERDIRQAGEAVAPAPKKRIHTFIATSPIH 114
Query: 191 MEHKLRKTKQQVVEIARSMVKFARSLGCDDVEFSPEDAGRSDRKFLYEILGEVIKVGATT 250
ME+KL+ +QV+E A VK AR DDVEFS EDA RS+ FL EI G VI+ GATT
Sbjct: 115 MEYKLKMKPKQVIEAAVKAVKIAREY-TDDVEFSCEDALRSEIDFLAEICGAVIEAGATT 173
Query: 251 LNIPDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQNDLGLSTANTIAGACAGARQV 310
+NIPDTVG ++P + + ++ A TP VV S HC NDLGL+ AN++A GARQV
Sbjct: 174 INIPDTVGYSIPYKTEEFFRELIAKTPNGGKVVWSAHCHNDLGLAVANSLAALKGGARQV 233
Query: 311 EVTINGIGERAGNASLEEVVMAFKCRGEHILGGLYTGINTRHIVMASKMVEEYTGLHVQP 370
E T+NG+GERAGNAS+EE+VMA K R + GL TGI+T IV +SK+V TG VQP
Sbjct: 234 ECTVNGLGERAGNASVEEIVMALKVRHDLF--GLETGIDTTQIVPSSKLVSTITGYPVQP 291
Query: 371 HKAIVGANAFAHESGIHQDGMLKHKGTYEIISPEDIGLERSSEAGIVLGKLSGRHALKDR 430
+KAIVGANAF+HESGIHQDG+LKH+ TYEI+S E +G + + LGKLSGR+A K +
Sbjct: 292 NKAIVGANAFSHESGIHQDGVLKHRETYEIMSAESVGWATNR---LSLGKLSGRNAFKTK 348
Query: 431 LKE 433
L +
Sbjct: 349 LAD 351
>3eeg_A 2-isopropylmalate synthase; 11106D, beta barrel, PSI-II, structural
genomics, protein structure initiative; 2.78A {Cytophaga
hutchinsonii atcc 33406}
Length = 325
Score = 617 bits (1595), Expect = 0.0
Identities = 168/330 (50%), Positives = 220/330 (66%), Gaps = 12/330 (3%)
Query: 74 IPDPNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAV 133
+ + VFDTTLRDGEQ PG L ++EK+ +A+ L +LGVD+IEAGFP +S DF +V
Sbjct: 1 MSLGKRIFVFDTTLRDGEQVPGCQLNTEEKIIVAKALDELGVDVIEAGFPVSSPGDFNSV 60
Query: 134 RTIAKEVGNAVDAESGYVPVICGLSRCNERDIKTAWEAVKYAKRPRIHTFIATSGIHMEH 193
I K V P IC L+R E DI A EA+++AKR RIHT I +S IH+EH
Sbjct: 61 VEITKAVTR---------PTICALTRAKEADINIAGEALRFAKRSRIHTGIGSSDIHIEH 111
Query: 194 KLRKTKQQVVEIARSMVKFARSLGCDDVEFSPEDAGRSDRKFLYEILGEVIKVGATTLNI 253
KLR T++ ++E+A + VK A+ + +VEF EDAGR+D+ FL ++ VI+ GA +NI
Sbjct: 112 KLRSTRENILEMAVAAVKQAKKV-VHEVEFFCEDAGRADQAFLARMVEAVIEAGADVVNI 170
Query: 254 PDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQNDLGLSTANTIAGACAGARQVEVT 313
PDT G +P ++G+ I + N I+ ++S HC NDLGL+TAN++A GARQVE T
Sbjct: 171 PDTTGYMLPWQYGERIKYLMDNVSNIDKAILSAHCHNDLGLATANSLAALQNGARQVECT 230
Query: 314 INGIGERAGNASLEEVVMAFKCRGEHILGGLYTGINTRHIVMASKMVEEYTGLHVQPHKA 373
INGIGERAGN +LEEVVMA +C E + GL TGIN + +V S +V + VQ +KA
Sbjct: 231 INGIGERAGNTALEEVVMAMECHKETL--GLETGINHKKLVPISHLVSTLMRMQVQSNKA 288
Query: 374 IVGANAFAHESGIHQDGMLKHKGTYEIISP 403
IVG NAFAH SGIHQDG LKH+ TYEII
Sbjct: 289 IVGRNAFAHSSGIHQDGFLKHRETYEIIDE 318
>3ivs_A Homocitrate synthase, mitochondrial; TIM barrel, metalloprotein,
transferase, claisen condensatio acid biosynthesis;
2.24A {Schizosaccharomyces pombe} PDB: 3ivt_A* 3ivu_A*
3mi3_A*
Length = 423
Score = 596 bits (1540), Expect = 0.0
Identities = 104/389 (26%), Positives = 168/389 (43%), Gaps = 27/389 (6%)
Query: 48 SCSLQKPPPSLYPRITATRPEYIPNR---IPDPNYVRVFDTTLRDGEQSPGATLTSKEKL 104
S S+ + + + Y PN + N + ++TLR+GEQ A +++K+
Sbjct: 5 SMSVSEANGTETIKPPMNGNPYGPNPSDFLSRVNNFSIIESTLREGEQFANAFFDTEKKI 64
Query: 105 DIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNAVDAESGYVPVICGLSRCNERD 164
IA+ L GVD IE P AS++ + I K I RC+ D
Sbjct: 65 QIAKALDNFGVDYIELTSPVASEQSRQDCEAICKLGLKC---------KILTHIRCHMDD 115
Query: 165 IKTAWEAVKYAKRPRIHTFIATSGIHMEHKLRKTKQQVVEIARSMVKFARSLGCDDVEFS 224
+ A E + I TS ++ K +++ A ++ F +S +V FS
Sbjct: 116 ARVAVETGV----DGVDVVIGTSQYLRKYSHGKDMTYIIDSATEVINFVKSK-GIEVRFS 170
Query: 225 PEDAGRSDRKFLYEILGEVIKVGATTLNIPDTVGITMPTEFGKLIADIKANTPGIENVVI 284
ED+ RSD L + V K+G + I DTVG P + LI ++ G+ + I
Sbjct: 171 SEDSFRSDLVDLLSLYKAVDKIGVNRVGIADTVGCATPRQVYDLIRTLR----GVVSCDI 226
Query: 285 STHCQNDLGLSTANTIAGACAGARQVEVTINGIGERAGNASLEEVVMAFKCRGEHILGGL 344
H ND G++ AN AGA ++ +I GIGER G L ++ +
Sbjct: 227 ECHFHNDTGMAIANAYCALEAGATHIDTSILGIGERNGITPLGALLARMYVTDRE---YI 283
Query: 345 YTGINTRHIVMASKMVEEYTGLHVQPHKAIVGANAFAHESGIHQDGMLKHKGTYEIISPE 404
+ +V + + + + I G AF H++GIH +L + TYEI+ PE
Sbjct: 284 THKYKLNQLRELENLVADAVEVQIPFNNYITGMCAFTHKAGIHAKAILANPSTYEILKPE 343
Query: 405 DIGLERSSEAGIVLGKLSGRHALKDRLKE 433
D G+ R V +L+G +A+K R ++
Sbjct: 344 DFGMSRYV---HVGSRLTGWNAIKSRAEQ 369
>2ztj_A Homocitrate synthase; (beta/alpha)8 TIM barrel, substrate complex,
amino-acid BIOS lysine biosynthesis, transferase; HET:
AKG; 1.80A {Thermus thermophilus} PDB: 2ztk_A* 2zyf_A*
3a9i_A*
Length = 382
Score = 569 bits (1469), Expect = 0.0
Identities = 91/358 (25%), Positives = 155/358 (43%), Gaps = 26/358 (7%)
Query: 78 NYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIA 137
++ D+TLR+GEQ A ++++K++IA+ L + G++ IE P AS + + +A
Sbjct: 2 REWKIIDSTLREGEQFEKANFSTQDKVEIAKALDEFGIEYIEVTTPVASPQSRKDAEVLA 61
Query: 138 KEVGNAVDAESGYVPVICGLSRCNERDIKTAWEAVKYAKRPRIHTFIATSGIHMEHKLRK 197
A + +C AV+ I TS ++ +
Sbjct: 62 SLGLKAK---------VVTHIQCRLDAA---KVAVE-TGVQGIDLLFGTSK-YLRAPHGR 107
Query: 198 TKQQVVEIARSMVKFARSLGCDDVE--FSPEDAGRSDRKFLYEILGEVIKVGATTLNIPD 255
+++E A+ ++ + R VE FS ED RS+ + L + E + + + D
Sbjct: 108 DIPRIIEEAKEVIAYIREA-APHVEVRFSAEDTFRSEEQDLLAVY-EAVAPYVDRVGLAD 165
Query: 256 TVGITMPTEFGKLIADIKANTPGIENVVISTHCQNDLGLSTANTIAGACAGARQVEVTIN 315
TVG+ P + L+ +++ V I H ND G + AN AGA V+ TI
Sbjct: 166 TVGVATPRQVYALVREVRRVVG--PRVDIEFHGHNDTGCAIANAYEAIEAGATHVDTTIL 223
Query: 316 GIGERAGNASLEEVVMAFKCRGEHILGGLYTGINTRHIVMASKMVEEYTGLHVQPHKAIV 375
GIGER G L + + + +MV G+ + + I
Sbjct: 224 GIGERNGITPLGGFLARMYTLQPE---YVRRKYKLEMLPELDRMVARMVGVEIPFNNYIT 280
Query: 376 GANAFAHESGIHQDGMLKHKGTYEIISPEDIGLERSSEAGIVLGKLSGRHALKDRLKE 433
G AF+H++G+H + + YE PE G++R I+ +L+GRHA+K R +E
Sbjct: 281 GETAFSHKAGMHLKAIYINPEAYEPYPPEVFGVKRKL---IIASRLTGRHAIKARAEE 335
>3ble_A Citramalate synthase from leptospira interrogans; TIM barrel,
licmsn, substrate specificity, acyltransferase,
amino-acid biosynthesis; 2.00A {Leptospira interrogans}
PDB: 3blf_A 3bli_A*
Length = 337
Score = 567 bits (1464), Expect = 0.0
Identities = 90/351 (25%), Positives = 153/351 (43%), Gaps = 23/351 (6%)
Query: 65 TRPEYIPNRIPDPNYVRVFDTTLRDGEQSPGATLTSKEKLDIAR-QLAKLGVDIIEAGFP 123
R + + + + D TLRDGEQ+ G + ++ EKL+IA+ L KL VD +E
Sbjct: 5 GRSQKVSQMTKVETRLEILDVTLRDGEQTRGVSFSTSEKLNIAKFLLQKLNVDRVEIASA 64
Query: 124 AASKEDFEAVRTIAKEVGNAVDAESGYVPVICGLSR-CNERDIKTAWEAVKYAKRPRIHT 182
SK + E V+ I + + D + +K + ++
Sbjct: 65 RVSKGELETVQKIMEWAAT---------EQLTERIEILGFVDGNKTVDWIKDSGAKVLNL 115
Query: 183 FIATSGIHMEHKLRKTKQQVVEIARSMVKFARSLGCDDVEFSPEDA---GRSDRKFLYEI 239
S H+E +L KT ++ ++++A + ED R+ ++ +
Sbjct: 116 LTKGSLHHLEKQLGKTPKEFFTDVSFVIEYAIKS-GLKINVYLEDWSNGFRNSPDYVKSL 174
Query: 240 LGEVIKVGATTLNIPDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQNDLGLSTANT 299
+ + K + +PDT+G+ P E + + + P ++ H ND LS AN+
Sbjct: 175 VEHLSKEHIERIFLPDTLGVLSPEETFQGVDSLIQKYP---DIHFEFHGHNDYDLSVANS 231
Query: 300 IAGACAGARQVEVTINGIGERAGNASLEEVVMAFKCRGEHILGGLYTGINTRHIVMASKM 359
+ AG + + +ING+GERAGN LE +V + T IN I AS++
Sbjct: 232 LQAIRAGVKGLHASINGLGERAGNTPLEALVTTIHDKS-----NSKTNINEIAITEASRL 286
Query: 360 VEEYTGLHVQPHKAIVGANAFAHESGIHQDGMLKHKGTYEIISPEDIGLER 410
VE ++G + ++ IVG + F +G+H DG K I PE G +R
Sbjct: 287 VEVFSGKRISANRPIVGEDVFTQTAGVHADGDKKGNLYANPILPERFGRKR 337
>3ewb_X 2-isopropylmalate synthase; LEUA, structural genomics, unknown
function, amino-acid biosynthesis; 2.10A {Listeria
monocytogenes str}
Length = 293
Score = 543 bits (1401), Expect = 0.0
Identities = 135/307 (43%), Positives = 188/307 (61%), Gaps = 16/307 (5%)
Query: 76 DPNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRT 135
++ FDTTLRDGEQ+PG KEK+ IA QL KLG+D+IEAGFP +S DFE V+
Sbjct: 2 SLKKIQFFDTTLRDGEQTPGVNFDVKEKIQIALQLEKLGIDVIEAGFPISSPGDFECVKA 61
Query: 136 IAKEVGNAVDAESGYVPVICGLSRCNERDIKTAWEAVKYAKRPRIHTFIATSGIHMEHKL 195
IAK + + + GL+RC E DI A EA+K A P+IH F+ATS +HME+KL
Sbjct: 62 IAKAIKH---------CSVTGLARCVEGDIDRAEEALKDAVSPQIHIFLATSDVHMEYKL 112
Query: 196 RKTKQQVVEIARSMVKFARSLGCDDVEFSPEDAGRSDRKFLYEILGEVIKVGATTLNIPD 255
+ ++ +V+ + + +AR D V+FSPEDA RSDR FL E + I GAT +NIPD
Sbjct: 113 KMSRAEVLASIKHHISYARQK-FDVVQFSPEDATRSDRAFLIEAVQTAIDAGATVINIPD 171
Query: 256 TVGITMPTEFGKLIADIKANTPGIENVVISTHCQNDLGLSTANTIAGACAGARQVEVTIN 315
TVG T PTEFG+L D++ ++++ ++HC +DLG++TAN +A GAR+VE TIN
Sbjct: 172 TVGYTNPTEFGQLFQDLRREIKQFDDIIFASHCHDDLGMATANALAAIENGARRVEGTIN 231
Query: 316 GIGERAGNASLEEVVMAFKCRGEHILGGLYTGINTRHIVMASKMVEEYTGLHVQPHKAIV 375
GIGERAGN +LEEV +A R + T I +S ++ +G+ V ++
Sbjct: 232 GIGERAGNTALEEVAVALHIRKDFY--QAETNIVLNQFKNSSDLISRLSGMPVPRNE--- 286
Query: 376 GANAFAH 382
+ H
Sbjct: 287 -GHHHHH 292
>3hq1_A 2-isopropylmalate synthase; LEUA, mycobacterium tuberculosis
inhibition, bromopyruvate, amino-acid biosynthesis; HET:
FLC; 1.70A {Mycobacterium tuberculosis} PDB: 1sr9_A
3hpz_A 3hps_A* 3fig_A 3u6w_A 3hpx_A
Length = 644
Score = 438 bits (1129), Expect = e-149
Identities = 111/460 (24%), Positives = 175/460 (38%), Gaps = 54/460 (11%)
Query: 20 SSSPKTKANASQLFFHCNNSKPFFKTTISCSLQKP---PPSLY-PRITATRPEYIPNRI- 74
S SP + + P S + Q+ P + Y P P + NR
Sbjct: 4 SESPDAYTESFGAHTIVKPAGPPRVGQPSWNPQRASSMPVNRYRPFAEEVEPIRLRNRTW 63
Query: 75 PD---PNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDFE 131
PD LRDG Q+ ++ K + L ++G IE GFP+AS+ DF+
Sbjct: 64 PDRVIDRAPLWCAVDLRDGNQALIDPMSPARKRRMFDLLVRMGYKEIEVGFPSASQTDFD 123
Query: 132 AVRTIAKEVGNAVDAESGYVPVICGLSRCNERDIKTAWEAVKYAKRPRIHTFIATSGIHM 191
VR I ++ D I L++C I+ ++A A R +H + +TS +
Sbjct: 124 FVREIIEQGAIPDDV------TIQVLTQCRPELIERTFQACSGAPRAIVHFYNSTSILQR 177
Query: 192 EHKLRKTKQQVVEIARSMVKFARSLGCD------DVEFSPEDAGRSDRKFLYEILGEVIK 245
R + +V IA + E+SPE ++ ++ ++ V +
Sbjct: 178 RVVFRANRAEVQAIATDGARKCVEQAAKYPGTQWRFEYSPESYTGTELEYAKQVCDAVGE 237
Query: 246 VGATT------LNIPDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQNDLGLSTANT 299
V A T N+P TV +T P + I + N E+V++S H ND G + A
Sbjct: 238 VIAPTPERPIIFNLPATVEMTTPNVYADSIEWMSRNLANRESVILSLHPHNDRGTAVAAA 297
Query: 300 IAGACAGARQVEVTINGIGERAGNASLEEVVMAFKCRGEHILGGLYTGINTRHIVMASKM 359
G AGA ++E + G GER GN L + + R G+ I+ +I +
Sbjct: 298 ELGFAAGADRIEGCLFGNGERTGNVCLVTLGLNLFSR------GVDPQIDFSNIDEIRRT 351
Query: 360 VEEYTGLHVQPHKAIVGANAFAHESGIHQDGMLKHKGTYE-------------------- 399
VE L V G + SG HQD + K +
Sbjct: 352 VEYCNQLPVHERHPYGGDLVYTAFSGSHQDAINKGLDAMKLDADAADCDVDDMLWQVPYL 411
Query: 400 IISPEDIGLERSSEAGIVLGKLSGRHALKDRLKEVCQYVI 439
I P D+G R+ EA I + SG+ + +K +
Sbjct: 412 PIDPRDVG--RTYEAVIRVNSQSGKGGVAYIMKTDHGLSL 449
>1nvm_A HOA, 4-hydroxy-2-oxovalerate aldolase; sequestered tunnel,
substrate channeling; HET: NAD; 1.70A {Pseudomonas SP}
SCOP: a.5.7.1 c.1.10.5
Length = 345
Score = 378 bits (972), Expect = e-130
Identities = 75/374 (20%), Positives = 130/374 (34%), Gaps = 56/374 (14%)
Query: 76 DPNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPAASK-------- 127
+ + D TLRDG + T + IAR L K VD IE +
Sbjct: 5 PSKKLYISDVTLRDGSHAIRHQYTLDDVRAIARALDKAKVDSIEVAHGDGLQGSSFNYGF 64
Query: 128 ---EDFEAVRTIAKEVGNAVDAESGYVPVICGLS---RCNERDIKTAWEAVKYAKRPRIH 181
D E + +A E+ +A I L + D+K A++A A+ R+
Sbjct: 65 GRHTDLEYIEAVAGEISHAQ---------IATLLLPGIGSVHDLKNAYQAG--ARVVRVA 113
Query: 182 TFIATSGIHMEHKLRKTKQQVVEIARSMVKFARSLGCDDVEFSPEDAGRSDRKFLYEILG 241
T + + +H +++AR+LG D + + L E
Sbjct: 114 THCTEADVSKQH----------------IEYARNLG-MDTVGFLMMSHMIPAEKLAEQGK 156
Query: 242 EVIKVGATTLNIPDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQNDLGLSTANTIA 301
+ GAT + + D+ G + + KA + H ++L L AN+I
Sbjct: 157 LMESYGATCIYMADSGGAMSMNDIRDRMRAFKAVLKP--ETQVGMHAHHNLSLGVANSIV 214
Query: 302 GACAGARQVEVTINGIGERAGNASLEEVVMAFKCRGEHILGGLYTGINTRHIV-MASKMV 360
G +V+ ++ G+G AGNA LE + + G G + ++ A +V
Sbjct: 215 AVEEGCDRVDASLAGMGAGAGNAPLEVFIAVAERL------GWNHGTDLYTLMDAADDIV 268
Query: 361 EEYTGLHVQPHKAIVGANAFAHESGIHQ-DGMLKHKGTYEIISPEDIGLERSSEAGIVLG 419
V+ + +G S + + K + + DI L +V G
Sbjct: 269 RPLQDRPVRVDRETLGLGYAGVYSSFLRHAEIAAAKYNLKTL---DI-LVELGHRRMVGG 324
Query: 420 KLSGRHALKDRLKE 433
+ + L
Sbjct: 325 QEDMIVDVALDLLA 338
>3dxi_A Putative aldolase; TIM barrel, 11107N, PSI2, NYSGXRC, structural
genomics, protein structure initiative; 2.04A
{Bacteroides vulgatus atcc 8482}
Length = 320
Score = 266 bits (681), Expect = 2e-86
Identities = 54/353 (15%), Positives = 109/353 (30%), Gaps = 42/353 (11%)
Query: 80 VRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKE 139
+++ D TLRDG SK + +L +D +E G+ +++
Sbjct: 3 LKILDCTLRDGGYYTNWDFNSKIVDAYILAMNELPIDYLEVGYRNKPSKEYMGKFGYTPV 62
Query: 140 VGNAVDAESGYVPVICGLSRCNERDIKTAWEAVKYAKRPRIHTFIATSGIHMEHKLRKTK 199
+ +S + I H + G+ ++
Sbjct: 63 SVLK---------HLRNIST---KKIAIMLNEKNTTPEDLNHLLLPIIGLVDMIRI-AID 109
Query: 200 QQVVEIARSMVKFARSLGCDDVEFSPEDAGRSDRKFLYEILGEVIKVGATTLNIPDTVGI 259
Q ++ A + K +++G +V F+ + + + I A + D+ G
Sbjct: 110 PQNIDRAIVLAKAIKTMG-FEVGFNVMYMSKWAEMNGFLSKLKAIDKIADLFCMVDSFGG 168
Query: 260 TMPTEFGKLIADIKANTPGIENVVISTHCQNDLGLSTANTIAGACAGARQVEVTINGIGE 319
P E L+ +++ T +V + H ++L L N+I G ++ TI G+G
Sbjct: 169 ITPKEVKNLLKEVRKYT----HVPVGFHGHDNLQLGLINSITAIDDGIDFIDATITGMGR 224
Query: 320 RAGNASLEEVVMAFKCRGEHILGGLYTGINTRHIVMASKMVEEYTGLHVQPHKAIVGANA 379
AGN +E ++ ++ + K G N
Sbjct: 225 GAGNLKMELLLTYLNKHHG-------LNVDFNVLGNIITTFTPL------LEKYQWGTNL 271
Query: 380 FAHESGIH-------QDGMLKHKGTYEIISPEDIGLERSSEAGIVLGKLSGRH 425
SG + D + ++ I + + G H
Sbjct: 272 PYMLSGANNIPQKEVMDWVTNRVYSFNSIIRALDNRKNK----MEEGHHHHHH 320
>1ydo_A HMG-COA lyase; TIM-barrel protein, structural genomics, PSI,
protein struct initiative, northeast structural genomics
consortium, NESG,; 2.71A {Bacillus subtilis subsp}
Length = 307
Score = 65.6 bits (161), Expect = 4e-12
Identities = 66/343 (19%), Positives = 128/343 (37%), Gaps = 71/343 (20%)
Query: 77 PNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAG-F------PA-ASKE 128
P V + + RDG Q+ + +++K+ QL++ G+ IE F PA
Sbjct: 4 PKKVTIKEVGPRDGLQNEPVWIATEDKITWINQLSRTGLSYIEITSFVHPKWIPALRD-- 61
Query: 129 DFEAVRTIAKEVGNAVDAESG--Y---VPVICGLSRCNERDIKTAWEA-VKYAKRPRIHT 182
A +V +D E G Y VP N+R ++ A E +
Sbjct: 62 --------AIDVAKGIDREKGVTYAALVP--------NQRGLENALEGGIN-----EACV 100
Query: 183 FIATSGIHMEHKLRKTKQQVVEIARSMVKFAR------------SLGCDDVEFSPEDAGR 230
F++ S H + K+ + + I + + A+ GC P +
Sbjct: 101 FMSASETHNRKNINKSTSESLHILKQVNNDAQKANLTTRAYLSTVFGC------PYE-KD 153
Query: 231 SDRKFLYEILGEVIKVGATTLNIPDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQN 290
+ + + + + G + L++ DT+G P + ++ + A P + I+ H +
Sbjct: 154 VPIEQVIRLSEALFEFGISELSLGDTIGAANPAQVETVLEALLARFPANQ---IALHFHD 210
Query: 291 DLGLSTANTIAGACAGARQVEVTINGIG-----ERA-GNASLEEVVMAFKCRGEHILGGL 344
G + AN + G + + G+G + GNA+ E++V + +
Sbjct: 211 TRGTALANMVTALQMGITVFDGSAGGLGGCPYAPGSSGNAATEDIVYMLEQM------DI 264
Query: 345 YTGINTRHIVMASKMVEEYTGLHVQPHKAIVGANAFAHESGIH 387
T + ++ A+K +EE G + V ++ H H
Sbjct: 265 KTNVKLEKLLSAAKWIEEKMGKPLPSRNLQVFKSSLEHHHHHH 307
>2cw6_A Hydroxymethylglutaryl-COA lyase, mitochondrial; HMG-COA lyase,
ketogenic enzyme; HET: 3HG; 2.10A {Homo sapiens} PDB:
3mp3_A* 3mp4_A 3mp5_A*
Length = 298
Score = 64.8 bits (159), Expect = 8e-12
Identities = 58/320 (18%), Positives = 124/320 (38%), Gaps = 69/320 (21%)
Query: 77 PNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAG-F------PA-ASKE 128
P V++ + RDG Q+ +++ K+ + L++ G+ +IE F P
Sbjct: 3 PKRVKIVEVGPRDGLQNEKNIVSTPVKIKLIDMLSEAGLSVIETTSFVSPKWVPQMGD-- 60
Query: 129 DFEAVRTIAKEVGNAVDAESG--Y---VPVICGLSRCNERDIKTAWEAVKYAKRPRIHTF 183
EV + G Y P N + + A A + F
Sbjct: 61 --------HTEVLKGIQKFPGINYPVLTP--------NLKGFEAAVAA----GAKEVVIF 100
Query: 184 IATSGIHMEHKLRKTKQQVVEIARSMVKFAR------------SLGCDDVEFSPEDAGRS 231
A S + + + + ++ + +++K A+ +LGC P + G+
Sbjct: 101 GAASELFTKKNINCSIEESFQRFDAILKAAQSANISVRGYVSCALGC------PYE-GKI 153
Query: 232 DRKFLYEILGEVIKVGATTLNIPDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQND 291
+ E+ + +G +++ DT+G+ P +++ + P ++ HC +
Sbjct: 154 SPAKVAEVTKKFYSMGCYEISLGDTIGVGTPGIMKDMLSAVMQEVPLAA---LAVHCHDT 210
Query: 292 LGLSTANTIAGACAGARQVEVTINGIG-----ERA-GNASLEEVVMAFKCRGEHILGGLY 345
G + ANT+ G V+ ++ G+G + A GN + E++V + G++
Sbjct: 211 YGQALANTLMALQMGVSVVDSSVAGLGGCPYAQGASGNLATEDLVYMLEGL------GIH 264
Query: 346 TGINTRHIVMASKMVEEYTG 365
TG+N + ++ A + +
Sbjct: 265 TGVNLQKLLEAGNFICQALN 284
>2ftp_A Hydroxymethylglutaryl-COA lyase; structural genomics, PSI, protein
structure initiativ midwest center for structural
genomics, MCSG; 2.40A {Pseudomonas aeruginosa}
Length = 302
Score = 64.0 bits (157), Expect = 2e-11
Identities = 64/320 (20%), Positives = 120/320 (37%), Gaps = 69/320 (21%)
Query: 77 PNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAG-F------PA-ASKE 128
P VR+ + RDG Q+ + +K+ + L+ G+D IE G F P A
Sbjct: 6 PKKVRLVEVGPRDGLQNEKQPIEVADKIRLVDDLSAAGLDYIEVGSFVSPKWVPQMAG-- 63
Query: 129 DFEAVRTIAKEVGNAVDAESG--Y---VPVICGLSRCNERDIKTAWEAVKYAKRPRIHTF 183
+ EV + G Y P N + + A E+ + F
Sbjct: 64 --------SAEVFAGIRQRPGVTYAALAP--------NLKGFEAALES----GVKEVAVF 103
Query: 184 IATSGIHMEHKLRKTKQQVVEIARSMVKFAR------------SLGCDDVEFSPEDAGRS 231
A S + + + + +E +++ AR LGC P D G
Sbjct: 104 AAASEAFSQRNINCSIKDSLERFVPVLEAARQHQVRVRGYISCVLGC------PYD-GDV 156
Query: 232 DRKFLYEILGEVIKVGATTLNIPDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQND 291
D + + + E+ ++G +++ DT+G+ +LI + + P ++ H +
Sbjct: 157 DPRQVAWVARELQQMGCYEVSLGDTIGVGTAGATRRLIEAVASEVPRER---LAGHFHDT 213
Query: 292 LGLSTANTIAGACAGARQVEVTINGIG-----ERA-GNASLEEVVMAFKCRGEHILGGLY 345
G + AN A G + ++ G+G + A GN + E+V+ ++
Sbjct: 214 YGQALANIYASLLEGIAVFDSSVAGLGGCPYAKGATGNVASEDVLYLLNGL------EIH 267
Query: 346 TGINTRHIVMASKMVEEYTG 365
TG++ +V A + + G
Sbjct: 268 TGVDMHALVDAGQRICAVLG 287
>1ydn_A Hydroxymethylglutaryl-COA lyase; TIM-barrel protein, structural
genomics, PSI, protein struct initiative; 2.30A
{Brucella melitensis}
Length = 295
Score = 63.7 bits (156), Expect = 2e-11
Identities = 57/317 (17%), Positives = 106/317 (33%), Gaps = 69/317 (21%)
Query: 77 PNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAG-F------PA-ASKE 128
+V + + RDG Q+ + + +K+ + +L+ G IEA F P A
Sbjct: 2 AEHVEIVEMAARDGLQNEKRFVPTADKIALINRLSDCGYARIEATSFVSPKWVPQLAD-- 59
Query: 129 DFEAVRTIAKEVGNAVDAESG--Y---VPVICGLSRCNERDIKTAWEAVKYAKRPRIHTF 183
++EV + G Y VP N + + A A I F
Sbjct: 60 --------SREVMAGIRRADGVRYSVLVP--------NMKGYEAAAAA----HADEIAVF 99
Query: 184 IATSGIHMEHKLRKTKQQVVEIARSMVKFAR------------SLGCDDVEFSPEDAGRS 231
I+ S + + T + +E ++ A + C P D G
Sbjct: 100 ISASEGFSKANINCTIAESIERLSPVIGAAINDGLAIRGYVSCVVEC------PYD-GPV 152
Query: 232 DRKFLYEILGEVIKVGATTLNIPDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQND 291
+ + + ++ +G +++ DT+G P ++ + A P ++ H +
Sbjct: 153 TPQAVASVTEQLFSLGCHEVSLGDTIGRGTPDTVAAMLDAVLAIAPAHS---LAGHYHDT 209
Query: 292 LGLSTANTIAGACAGARQVEVTINGIG-----ERA-GNASLEEVVMAFKCRGEHILGGLY 345
G + N G R + ++ G+G A GN VV G
Sbjct: 210 GGRALDNIRVSLEKGLRVFDASVGGLGGCPFAPGAKGNVDTVAVVEMLHEM------GFE 263
Query: 346 TGINTRHIVMASKMVEE 362
TG++ + A +
Sbjct: 264 TGLDLDRLRSAGLFTQA 280
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 50.8 bits (121), Expect = 7e-07
Identities = 69/439 (15%), Positives = 128/439 (29%), Gaps = 164/439 (37%)
Query: 39 SKPFFKT--TISCSLQKP-PPSLYPRITATRPEYIPNRIPDPNYVRVFDTTLRDGEQSPG 95
++P + ++ L P + + + + ++ +P+P + D E +
Sbjct: 6 TRPLTLSHGSLEHVL--LVPTASFFIASQLQEQFNKI-LPEPT-----EGFAADDEPT-- 55
Query: 96 ATLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNAV--DAESGYVPV 153
+ +L + + L G+ ++ E + + +V N + E+ Y
Sbjct: 56 ----TPAEL-VGKFL----------GYVSSLVEPSKVGQF--DQVLNLCLTEFENCY--- 95
Query: 154 ICGLSRCNERDIKTAWEAVKYAKRPRIHTFIATSGIHMEHKLRKTKQQVVEIARSMVKFA 213
+ G N+ IH A + L KTK E+ ++ + A
Sbjct: 96 LEG----ND-----------------IHALAAKLLQENDTTLVKTK----ELIKNYIT-A 129
Query: 214 RSLGCDDVEFSPEDA-------------------GRSDRKF-----LYEI----LGEVIK 245
R + + A G +D F LY+ +G++IK
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIK 189
Query: 246 VGATTLN----------------------------IPD-----TVGITMP----TEFGKL 268
A TL+ PD ++ I+ P +
Sbjct: 190 FSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHY 249
Query: 269 IADIKAN--TPGIENVV-----ISTHCQNDLGLSTANTIAGACAGARQVEVTING----- 316
+ K TPG + + H Q GL TA IA +
Sbjct: 250 VVTAKLLGFTPG--ELRSYLKGATGHSQ---GLVTAVAIAETDSWESFFVSVRKAITVLF 304
Query: 317 -IGERA----GNASLE-EVVMAFKCRGE----HILGGLYTGINTRHIVMASKMVEEYTGL 366
IG R N SL ++ E +L + + + V + T
Sbjct: 305 FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLS--ISNLTQEQV---QDYVNK-TNS 358
Query: 367 HVQPHKAIV-----GANAF 380
H+ K + GA
Sbjct: 359 HLPAGKQVEISLVNGAKNL 377
Score = 37.0 bits (85), Expect = 0.015
Identities = 34/227 (14%), Positives = 64/227 (28%), Gaps = 78/227 (34%)
Query: 24 KTKANASQLFFH-----CNNSKPFFK----TTISCSLQKPPPSLY------PRITATRPE 68
+ + N S + F ++ FK + S + + L P +T E
Sbjct: 1683 RIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLM--E 1740
Query: 69 YIPNR-------IPDPNYV---------------RV--FDTTL-----RDGEQSPGATLT 99
IP V ++ + R G T+
Sbjct: 1741 KAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYR------GMTMQ 1794
Query: 100 SKEKLDIARQLAKLGVDIIEAGFPAASKEDF--EAVRTIAKEVGNAVDAESGYV------ 151
D +L + +I A P F EA++ + + VG +G++
Sbjct: 1795 VAVPRD---ELGRSNYGMI-AINPGRVAASFSQEALQYVVERVG----KRTGWLVEIVNY 1846
Query: 152 --P----VICGLSRCNERDIKTAWEAVKYAKRPRIHTFIATSGIHME 192
V G + R + T + + K +I + +E
Sbjct: 1847 NVENQQYVAAG----DLRALDTVTNVLNFIKLQKIDIIELQKSLSLE 1889
Score = 37.0 bits (85), Expect = 0.016
Identities = 27/172 (15%), Positives = 45/172 (26%), Gaps = 77/172 (44%)
Query: 11 FTNRQPTFIS-----SSPKTKANASQLFFHCNNSKPFFKTTISCSLQKPPPSLYPRITAT 65
F+ R+ F + +SP FH + L +
Sbjct: 409 FSERKLKFSNRFLPVASP----------FHS----HLLVPASDLINK----DLVKNNVSF 450
Query: 66 RPEYIPNRIPDPNYVRVFDTTLRDGE--QSPGATLTSK------------EK-------- 103
+ I +IP V+DT DG + +++ + E
Sbjct: 451 NAKDI--QIP------VYDT--FDGSDLRVLSGSISERIVDCIIRLPVKWETTTQFKATH 500
Query: 104 -LD------------IARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGN 142
LD R GV +I AG + +D + G
Sbjct: 501 ILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDD---------DYGF 543
Score = 35.0 bits (80), Expect = 0.055
Identities = 50/295 (16%), Positives = 78/295 (26%), Gaps = 102/295 (34%)
Query: 1 MAATTAAA----AFFTN-------------R-QPTF--ISSSPKTKANA----------- 29
A A +FF + R + S P ++
Sbjct: 279 TAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPM 338
Query: 30 --------SQLFFH---CNNSKPFFKTTISCSLQK---------PPPSLYPRITATRPEY 69
Q+ + N+ P K + SL PP SLY R
Sbjct: 339 LSISNLTQEQVQDYVNKTNSHLPAGKQ-VEISLVNGAKNLVVSGPPQSLYGLNLTLRKAK 397
Query: 70 IP-----NRIPD----PNYVRVFDTTLRDGEQSP--GATLTSKEKLDIARQLAKLGVDII 118
P +RIP + F SP L L I + L K V
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFLPVA-----SPFHSHLLVPASDL-INKDLVKNNVSFN 451
Query: 119 --EAGFPAASKEDFEAVRTIAKEVGNAVDAESGYVPVICGLSRCNERDIKTAWEAVKYAK 176
+ P D +R ++ + + V I L WE K
Sbjct: 452 AKDIQIPVYDTFDGSDLRVLSGSISERI------VDCIIRL-PVK-------WETTTQFK 497
Query: 177 RPRIHTF--IATSGI-HMEHKLRK-TKQQVVEIARSMVKFARSLGCDDVEFSPED 227
I F SG+ + H+ + T +V+ ++ +P+D
Sbjct: 498 ATHILDFGPGGASGLGVLTHRNKDGTGVRVIVAG-------------TLDINPDD 539
Score = 34.3 bits (78), Expect = 0.086
Identities = 53/301 (17%), Positives = 91/301 (30%), Gaps = 87/301 (28%)
Query: 188 GIH---MEHKLRKTKQQVVEIARSMVKFARSLGCDDVEFSPEDAGRSDRKFLYEIL---- 240
G M L KT + A+ + A + D FS D ++ L I
Sbjct: 1625 GSQEQGMGMDLYKT----SKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLT-IHFGGE 1679
Query: 241 -GEVIKVGATTLNIPDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQNDLGLSTANT 299
G+ I+ + + V + TE K+ +I ++ + L T T
Sbjct: 1680 KGKRIRENYSAMIFETIVDGKLKTE--KIFKEINEHSTSY----TFRSEKGLLSA-TQFT 1732
Query: 300 ------IAGAC------AGARQVEVTING--IGE------RAGNASLEEVVMAFKCRGEH 339
+ A G + T G +GE A S+E +V RG
Sbjct: 1733 QPALTLMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMT 1792
Query: 340 I--------LGGLYTG---INTRHIVMA------SKMVEEY---TGLHVQPHKAIVGANA 379
+ LG G IN + + +VE TG V+ IV N
Sbjct: 1793 MQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVE----IVNYNV 1848
Query: 380 FAHESGIHQDGMLKHKGTYEIISPEDIGLERSSEA-------GIVLGKLSGRHALKDRLK 432
+ Y + + + L+ + I + +L +L + ++
Sbjct: 1849 ---------ENQ-----QY-VAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSL-EEVE 1892
Query: 433 E 433
Sbjct: 1893 G 1893
>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 = 44.8 bits (105), Expect = 5e-05
Identities = 65/484 (13%), Positives = 135/484 (27%), Gaps = 154/484 (31%)
Query: 11 FTNRQPTFISSSPKTKANASQLFFHCNNSKP------FFKTTISCSLQKPPPSLYPRITA 64
+ + I S + + F SK F + L+ L I
Sbjct: 46 LSKEEIDHIIMSK-DAVSGTLRLFWTLLSKQEEMVQKFVEE----VLRINYKFLMSPI-- 98
Query: 65 TRPEYIPNRIPDPNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPA 124
+ E + Y+ D D + K +++R
Sbjct: 99 -KTEQRQPSMMTRMYIEQRDRLYNDNQVFA--------KYNVSR---------------- 133
Query: 125 ASKEDFEAVRTIAKEVGNAVDAESGYVPVICGLSRCNERDIKTAWEAVKYAKRPRIHTFI 184
+ + +R E+ A V +I G+ KT W A+ ++ +
Sbjct: 134 --LQPYLKLRQALLELRPA-----KNV-LIDGVLGSG----KT-WVALDVCLSYKVQCKM 180
Query: 185 ATSGIH-MEHKLRKTKQQVVEIARSMVKFARSLGCDDVEFSP------EDAGRSDRKFL- 236
I + K + + V+E+ + ++ + S R+ L
Sbjct: 181 D-FKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239
Query: 237 ---YE----IL-----GEVIK---VGATTLNIPDTVGITMPTEFGKLIADIKANTPGIEN 281
YE +L + + L +T T F ++ + A T +
Sbjct: 240 SKPYENCLLVLLNVQNAKAWNAFNLSCKIL-------LT--TRFKQVTDFLSAATTTHIS 290
Query: 282 VVISTHCQNDLGLSTANTIAGACAGARQVEVTINGIGERAGNASL-EEVVMAFKCRGEHI 340
+ + + L+ + + + R L EV+
Sbjct: 291 LD-----HHSMTLTPDEV----------KSLLLKYLDCRPQ--DLPREVL---------- 323
Query: 341 LGGLYTGINTRHIVMASKMVEEYTG-----LHVQ--PHKAIVGANAFAHESGIHQDGMLK 393
N R + + ++ + + HV I+ ES ++ L+
Sbjct: 324 ------TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTII-------ESSLNV---LE 367
Query: 394 ---HKGTYEIIS--PEDIG-----LER------SSEAGIVLGKLSGRHALKDRLKEVCQY 437
++ ++ +S P L S+ +V+ KL ++ + KE
Sbjct: 368 PAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKE---S 424
Query: 438 VIFI 441
I I
Sbjct: 425 TISI 428
>1rqb_A Transcarboxylase 5S subunit; TIM-barrel, carbamylated lysine,
transfera; HET: KCX; 1.90A {Propionibacterium
freudenreichii subspshermanii} SCOP: a.5.7.2 c.1.10.5
PDB: 1rqe_A 1rqh_A* 1rr2_A* 1u5j_A* 1s3h_A*
Length = 539
Score = 43.0 bits (102), Expect = 1e-04
Identities = 55/309 (17%), Positives = 97/309 (31%), Gaps = 100/309 (32%)
Query: 73 RIPDPNYVRVFDTTLRDGEQSPGAT-LTSKEKLDIARQLAKLGVDIIE----AGFPAAS- 126
+ +P V + + LRD QS AT + ++ + + G +E A + +
Sbjct: 18 EVSEPREVGITELVLRDAHQSLMATRMAMEDMVGACADIDAAGYWSVECWGGATYDSCIR 77
Query: 127 --KED-FEAVRTIAKEV-----------GNAVDAESGYVP----VI---CGLSRCNERDI 165
ED +E +RT K + N + GY V+ S N D+
Sbjct: 78 FLNEDPWERLRTFRKLMPNSRLQMLLRGQNLL----GYRHYNDEVVDRFVDKSAENGMDV 133
Query: 166 -------------KTAWEAVKYAKRPRIHTFIA-------TSGIHMEHKLRKTKQQVVEI 205
A AVK A + A S +H T + V++
Sbjct: 134 FRVFDAMNDPRNMAHAMAAVKKAGK------HAQGTICYTISPVH-------TVEGYVKL 180
Query: 206 ARSMVKFARSLGCDDVEFSPEDAGRSDRKFLYEILGEVIKVGATTLNIPDTVGITMPTEF 265
A ++ +G D + +K D + P
Sbjct: 181 AGQLLD----MGAD-------------------SIA--LK---------DMAALLKPQPA 206
Query: 266 GKLIADIKANTPGIENVVISTHCQNDLGLSTANTIAGACAGARQVEVTINGIGERAGNAS 325
+I IK + I+ HC + G++ + + AG V+ I+ + G+
Sbjct: 207 YDIIKAIKDTYG--QKTQINLHCHSTTGVTEVSLMKAIEAGVDVVDTAISSMSLGPGHNP 264
Query: 326 LEEVVMAFK 334
E V +
Sbjct: 265 TESVAEMLE 273
>2nx9_A Oxaloacetate decarboxylase 2, subunit alpha; carboxyltransferase
structure, B enzymes, Zn2+ binding site, TIM-barrel
fold, lyase; 1.70A {Vibrio cholerae}
Length = 464
Score = 42.6 bits (101), Expect = 2e-04
Identities = 63/302 (20%), Positives = 106/302 (35%), Gaps = 102/302 (33%)
Query: 80 VRVFDTTLRDGEQSPGAT-LTSKEKLDIARQLAKLGVDIIE----AGFPAAS---KED-F 130
V V D LRD QS AT L + L IA+QL ++G +E A F + ED +
Sbjct: 8 VGVTDVVLRDAHQSLFATRLRIDDMLPIAQQLDQIGYWSLECWGGATFDSCIRFLGEDPW 67
Query: 131 EAVRTIAKEV----------G-NAVDAESGYVP----VI---CGLSRCNERDI------- 165
+ +R + + + G N + GY V+ + N D+
Sbjct: 68 QRLRLLKQAMPNTPLQMLLRGQNLL----GYRHYADDVVDTFVERAVKNGMDVFRVFDAM 123
Query: 166 ------KTAWEAVKYAKRPRIHTFIA-------TSGIHMEHKLRKTKQQVVEIARSMVKF 212
+ A +AVK A TS +H Q V++A+ + +
Sbjct: 124 NDVRNMQQALQAVKKMGA------HAQGTLCYTTSPVH-------NLQTWVDVAQQLAE- 169
Query: 213 ARSLGCDDVEFSPEDAGRSDRKFLYEILGEVIKVGATTLNIPDTVGITMPTEFGKLIADI 272
LG D + +K D GI P +L++ +
Sbjct: 170 ---LGVD-------------------SIA--LK---------DMAGILTPYAAEELVSTL 196
Query: 273 KANTPGIENVVISTHCQNDLGLSTANTIAGACAGARQVEVTINGIGERAGNASLEEVVMA 332
K +V + HC + GL+ + AG +V+ I+ + G+ + E +V
Sbjct: 197 KKQV----DVELHLHCHSTAGLADMTLLKAIEAGVDRVDTAISSMSGTYGHPATESLVAT 252
Query: 333 FK 334
+
Sbjct: 253 LQ 254
>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 = 43.1 bits (102), Expect = 2e-04
Identities = 67/354 (18%), Positives = 116/354 (32%), Gaps = 75/354 (21%)
Query: 37 NNSKPFFKT----TISCSLQKPPPSLYPRITATRPEYIPNRIPDPNYVRVFDTTLRDGEQ 92
KP ++ T+S S + P+ + + + V + DTT RD Q
Sbjct: 486 KRPKPDYELASIPTVSSSKIASFSGTKQLLDEVGPKGVAEWVKKQDDVLLTDTTFRDAHQ 545
Query: 93 SPGAT-LTSKEKLDIARQLAKLGVDI--IE----AGFPAA---SKED-FEAVRTIAKEVG 141
S AT + +K+ ++IA + A + D +E A F A KE+ +E + + K +
Sbjct: 546 SLLATRVRTKDMINIASKTADVFKDGFSLEMWGGATFDVAYNFLKENPWERLERLRKAIP 605
Query: 142 NAVDAESGYVPVICGLSRCNERDIKTAWEAVKYAKRPR--IHTFI---ATSGIH------ 190
N V L N AV Y P IH F+ A +GI
Sbjct: 606 N--------VLFQMLLRASN---------AVGYKNYPDNVIHKFVQESAKAGIDVFRIFD 648
Query: 191 -----------MEHKLRKTKQQVVEIARSMVKFARSLGCDDVEFSPEDAGRSDRKFLYEI 239
E K + E D+ +PE + ++ ++
Sbjct: 649 SLNWVDQMKVANEAVQEAGK--ISEGTICYT--------GDI-LNPERSNIYTLEYYVKL 697
Query: 240 LGEVIKVGATTLNIPDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQNDLGLSTANT 299
E+ + G L I D G+ P +LI ++K+ ++ I H + G
Sbjct: 698 AKELEREGFHILAIKDMAGLLKPKAAYELIGELKSAV----DLPIHLHTHDTSGNGLLTY 753
Query: 300 IAGACAGARQVEVTINGIGERAGNASLEEVVMAFKCRGEHILGGLYTGINTRHI 353
AG ++ + + S + A H + +
Sbjct: 754 KQAIDAGVDIIDTAVASMSGLTSQPSANSLYYALNGFPRH------LRTDIEGM 801
>3bg3_A Pyruvate carboxylase, mitochondrial; TIM barrel, ATP-binding,
biotin, disease mutation, gluconeogenesis, ligase, lipid
synthesis, manganese; HET: KCX BTI; 2.80A {Homo sapiens}
PDB: 3bg9_A
Length = 718
Score = 37.7 bits (88), Expect = 0.007
Identities = 16/66 (24%), Positives = 25/66 (37%), Gaps = 1/66 (1%)
Query: 52 QKPPPSLYPRITATRPEYIPNRIPDPNYVRVFDTTLRDGEQSPGAT-LTSKEKLDIARQL 110
PP + PE + + + + DTT RD QS AT + + + IA +
Sbjct: 75 GPPPAGFRDILLREGPEGFARAVRNHPGLLLMDTTFRDAHQSLLATRVRTHDLKKIAPYV 134
Query: 111 AKLGVD 116
A
Sbjct: 135 AHNFSK 140
Score = 37.3 bits (87), Expect = 0.011
Identities = 28/147 (19%), Positives = 53/147 (36%), Gaps = 15/147 (10%)
Query: 242 EVIKVGATTLNIPDTVGITMPTEFGKLIADIKANTPGIENVVISTHCQNDLGLSTANTIA 301
E+++ G L I D G+ PT L++ ++ P + + H + G A +A
Sbjct: 269 ELVRAGTHILCIKDMAGLLKPTACTMLVSSLRDRFPDLP---LHIHTHDTSGAGVAAMLA 325
Query: 302 GACAGARQVEVTINGIGERAGNASLEEVVMAFKCRGEHILGGLY-TGINTRHIVMASKMV 360
A AGA V+V + + S+ +V + G T + + S+
Sbjct: 326 CAQAGADVVDVAADSMSGMTSQPSMGALVACTR-------GTPLDTEVPMERVFDYSEYW 378
Query: 361 EE----YTGLHVQPHKAIVGANAFAHE 383
E Y ++ + +E
Sbjct: 379 EGARGLYAAFDCTATMKSGNSDVYENE 405
>3ma8_A Pyruvate kinase; parasitology, pyruvate kiase, glycol kinase,
magnesium, transferase, structural genomi structural
genomics consortium; HET: CIT; 2.64A {Cryptosporidium
parvum}
Length = 534
Score = 36.5 bits (85), Expect = 0.018
Identities = 14/66 (21%), Positives = 23/66 (34%), Gaps = 6/66 (9%)
Query: 94 PGA-----TLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNAVDAES 148
PG + K++ DI K +D I F + D + R I E +
Sbjct: 212 PGCKVHLPIIGDKDRHDIVDFALKYNLDFIALSF-VQNGADVQLCRQIISENTQYSNGIP 270
Query: 149 GYVPVI 154
+ +I
Sbjct: 271 SSIKII 276
>2qf7_A Pyruvate carboxylase protein; multi-domain, multi-functional,
biotin-dependent, ligase; HET: KCX COA AGS; 2.00A
{Rhizobium etli} PDB: 3tw6_A* 3tw7_A*
Length = 1165
Score = 33.1 bits (76), Expect = 0.24
Identities = 14/67 (20%), Positives = 26/67 (38%), Gaps = 1/67 (1%)
Query: 52 QKPPPSLYPRITATRPEYIPNRIPDPNYVRVFDTTLRDGEQSPGAT-LTSKEKLDIARQL 110
+ P+ + + V + DTT+RDG QS AT + + + IA
Sbjct: 523 NGVKDGTKQLLDTLGPKKFGEWMRNEKRVLLTDTTMRDGHQSLLATRMRTYDIARIAGTY 582
Query: 111 AKLGVDI 117
+ ++
Sbjct: 583 SHALPNL 589
>2ffc_A Orotidine 5-monophosphate decarboxylase; PV-PF10_0225, SGC,
structural genomics, struc genomics consortium, lyase;
HET: U5P; 1.70A {Plasmodium vivax} SCOP: c.1.2.3 PDB:
2guu_A*
Length = 353
Score = 32.1 bits (72), Expect = 0.32
Identities = 5/90 (5%), Positives = 20/90 (22%), Gaps = 1/90 (1%)
Query: 66 RPEYIPNRIPDPNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPAA 125
I + + ++ ++ ++G ++ A P
Sbjct: 43 DEADIKSFMQSEKQNGYQSVKKNLSNSGSSSSSSNSSSGKGELFAPQMGGQMLLAETPPK 102
Query: 126 SKEDFEAVRTIAKEVGNA-VDAESGYVPVI 154
++ + ++ Y
Sbjct: 103 EAQEKDEFFYFFNHFCFYIINETKEYALAY 132
>1to3_A Putative aldolase YIHT; beta-alpha barrel, structural genomics,
PSI, protein structure initiative; 2.70A {Salmonella
typhimurium} SCOP: c.1.10.1
Length = 304
Score = 30.5 bits (68), Expect = 0.99
Identities = 9/53 (16%), Positives = 22/53 (41%), Gaps = 5/53 (9%)
Query: 102 EKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNAVDAESGYVPVI 154
+D A++L G D+ + P K + T ++ + ++ +P +
Sbjct: 178 AIIDAAKELGDSGADLYKVEMPLYGKGARSDLLTASQRLNGHIN-----MPWV 225
>2qr6_A IMP dehydrogenase/GMP reductase; NP_599840.1, G reductase domain,
structural genomics, joint center for STR genomics,
JCSG; HET: MSE; 1.50A {Corynebacterium glutamicum atcc
13032}
Length = 393
Score = 29.8 bits (67), Expect = 1.9
Identities = 11/75 (14%), Positives = 23/75 (30%), Gaps = 12/75 (16%)
Query: 190 HMEHKLRKTKQQVVEIARSMVKFARS-LGCDDVEFSPEDAGRSDRKFLYEILGEVIKVGA 248
H H+ + + + + AR DD+ R R + + + A
Sbjct: 9 HHHHENLYFQGMRDHVEIGIGREARRTYSLDDISVVS---SRRTR--SSKDVDTTWHIDA 63
Query: 249 TTLNIP------DTV 257
++P D +
Sbjct: 64 YKFDLPFMNHPSDAL 78
>2b81_A Luciferase-like monooxygenase; TIM barrel, structural genomics,
PSI, protein structure INIT midwest center for
structural genomics, MCSG; HET: MES; 2.50A {Bacillus
cereus}
Length = 323
Score = 29.4 bits (66), Expect = 2.1
Identities = 9/57 (15%), Positives = 19/57 (33%)
Query: 84 DTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEV 140
D R G K +++ +GV+ + + E + + +EV
Sbjct: 260 DPNERPTPIRLGYRTGRKALIELLDIYKSIGVNHLFLALFDGQRPADEVLDELGEEV 316
>3h7f_A Serine hydroxymethyltransferase 1; cytoplasm, one-carbon
metabolism, pyridoxal phosphate, structural genomics;
HET: LLP; 1.50A {Mycobacterium tuberculosis}
Length = 447
Score = 29.5 bits (67), Expect = 2.5
Identities = 13/26 (50%), Positives = 17/26 (65%), Gaps = 1/26 (3%)
Query: 117 IIEAGFPAASKE-DFEAVRTIAKEVG 141
+I AG+ A + DF A R+IA EVG
Sbjct: 188 VIIAGWSAYPRVLDFAAFRSIADEVG 213
>2vi8_A Serine hydroxymethyltransferase; SHMT, E53Q, FTHF, enzyme memory,
pyridoxal phosphate, one-carbon metabolism,
PLP-dependent enzymes; HET: PLP; 1.67A {Bacillus
stearothermophilus} PDB: 2vi9_A* 2via_A* 2vib_A* 1kkj_A*
1kkp_A* 1kl1_A* 1kl2_A* 1yjs_A* 2w7f_A* 2w7d_A* 2w7e_A*
2w7g_A* 2w7h_A* 1yjz_A* 1yjy_A* 2vgu_A* 2vgs_A* 2vgt_A*
2vgv_A* 2vgw_A* ...
Length = 405
Score = 29.5 bits (67), Expect = 2.6
Identities = 11/26 (42%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 117 IIEAGFPAASKE-DFEAVRTIAKEVG 141
+I A A + DF R IA EVG
Sbjct: 166 LIVAAAAAYPRIIDFAKFREIADEVG 191
>3tha_A Tryptophan synthase alpha chain; structural genomics, center for
structural genomics of infec diseases, csgid, lyase;
2.37A {Campylobacter jejuni}
Length = 252
Score = 29.1 bits (66), Expect = 2.8
Identities = 5/20 (25%), Positives = 10/20 (50%)
Query: 104 LDIARQLAKLGVDIIEAGFP 123
++L + +DI+E G
Sbjct: 31 EAFLQRLDQSPIDILELGVA 50
>3gbx_A Serine hydroxymethyltransferase; structural genomics, IDP01011,
serine hydroxymethyltransfera salmonella typhimurium.;
HET: MSE; 1.80A {Salmonella typhimurium} PDB: 1dfo_A*
3g8m_A* 1eqb_A*
Length = 420
Score = 29.1 bits (66), Expect = 2.9
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 117 IIEAGFPAASKE-DFEAVRTIAKEVG 141
+I GF A S D+ +R IA +G
Sbjct: 172 MIIGGFSAYSGVVDWAKMREIADSIG 197
>1rd5_A Tryptophan synthase alpha chain, chloroplast; hydroxamic acid,
diboa, dimboa, indole, indole-glycerol-PHOS lyase; 2.02A
{Zea mays} SCOP: c.1.2.4 PDB: 1tjr_A
Length = 262
Score = 28.7 bits (65), Expect = 3.1
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 104 LDIARQLAKLGVDIIEAGFP 123
+ R L G D+IE G P
Sbjct: 35 AEALRLLDGCGADVIELGVP 54
>3ecd_A Serine hydroxymethyltransferase 2; ssgcid, decode, bupsa00008A,
one-carbon metabolism, pyridoxa phosphate, structural
genomics; 1.60A {Burkholderia pseudomallei}
Length = 425
Score = 29.1 bits (66), Expect = 3.2
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 117 IIEAGFPAASKE-DFEAVRTIAKEVG 141
+I AGF A ++ DF R IA VG
Sbjct: 175 LIIAGFSAYPRKLDFARFRAIADSVG 200
>2dkj_A Serine hydroxymethyltransferase; PLP dependent enzyme, structural
genomics; HET: PLP; 1.15A {Thermus thermophilus}
Length = 407
Score = 29.1 bits (66), Expect = 3.2
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 117 IIEAGFPAASKE-DFEAVRTIAKEVG 141
+I AG A + DF+A R IA EVG
Sbjct: 166 VIVAGASAYPRFWDFKAFREIADEVG 191
>3n0l_A Serine hydroxymethyltransferase; alpha beta class, 3-layer(ABA)
sandwich, CSGI transferase, structural genomics; HET:
MSE; 1.80A {Campylobacter jejuni}
Length = 417
Score = 29.1 bits (66), Expect = 3.3
Identities = 10/26 (38%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 117 IIEAGFPAASKE-DFEAVRTIAKEVG 141
+I G A ++ DF R IA E+G
Sbjct: 167 LIVCGASAYARVIDFAKFREIADEIG 192
>3nav_A Tryptophan synthase alpha chain; alpha subunit, structural
genomics, CSG center for structural genomics of
infectious diseases; 2.10A {Vibrio cholerae o1 biovar el
tor}
Length = 271
Score = 28.7 bits (65), Expect = 3.3
Identities = 8/20 (40%), Positives = 10/20 (50%)
Query: 104 LDIARQLAKLGVDIIEAGFP 123
L I + L G D +E G P
Sbjct: 37 LAIMQTLIDAGADALELGMP 56
>1mxs_A KDPG aldolase; 2-keto-3-deoxy-6-phosphogluconate aldolase, sulfate,
beta-BA lyase; 2.20A {Pseudomonas putida} SCOP: c.1.10.1
Length = 225
Score = 28.7 bits (64), Expect = 3.6
Identities = 8/46 (17%), Positives = 20/46 (43%), Gaps = 2/46 (4%)
Query: 99 TSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNAV 144
++ L +A LA G+ +E S+ +A++ + ++
Sbjct: 36 REEDILPLADALAAGGIRTLE--VTLRSQHGLKAIQVLREQRPELC 79
>1q6o_A Humps, 3-keto-L-gulonate 6-phosphate decarboxylase, D-; beta
barrel, lyase; HET: LG6; 1.20A {Escherichia coli} SCOP:
c.1.2.3 PDB: 1kw1_A* 1q6l_A* 1kv8_A* 1q6q_A* 1q6r_A*
1xbv_A* 1so5_A* 1so4_A* 1xby_A* 1so3_A* 1so6_A* 1xbz_A*
1xbx_A*
Length = 216
Score = 28.4 bits (63), Expect = 3.8
Identities = 26/177 (14%), Positives = 49/177 (27%), Gaps = 22/177 (12%)
Query: 97 TLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNAVDAESGYVPVICG 156
T + R +A+ VDIIE G E AVR + + V+
Sbjct: 12 NQTMDSAYETTRLIAE-EVDIIEVGTILCVGEGVRAVRDLKALY--------PHKIVLAD 62
Query: 157 LSRCNERDIKTAWEAVKYAKRPRIHTFIATSGIHMEHKLRKT------KQQVVEIARSMV 210
D + + T I + I+ Q+
Sbjct: 63 A---KIADAGKILSRMCFEANADWVTVICCADINTAKGALDVAKEFNGDVQIELTGYWTW 119
Query: 211 KFARSL---GCDDVEFSP-EDAGRSDRKFLYEILGEVIKVGATTLNIPDTVGITMPT 263
+ A+ G V + DA + + + + ++ + T G+ +
Sbjct: 120 EQAQQWRDAGIGQVVYHRSRDAQAAGVAWGEADITAIKRLSDMGFKVTVTGGLALED 176
>1qop_A Tryptophan synthase alpha chain; lyase, carbon-oxygen lyase,
tryptophan biosynthesis, pyridoxal phosphate; HET: IPL
PLP; 1.4A {Salmonella typhimurium} SCOP: c.1.2.4 PDB:
1k8x_A* 1wbj_A* 2clk_A* 2j9z_A* 3cep_A* 1k8y_A* 1a5s_A*
1a50_A* 1c29_A* 1c8v_A* 1c9d_A* 1bks_A* 1cx9_A* 1fuy_A*
1cw2_A* 1k7e_A* 1k7f_A* 1k7x_A* 1k3u_A* 1k8z_A* ...
Length = 268
Score = 28.7 bits (65), Expect = 3.9
Identities = 8/20 (40%), Positives = 9/20 (45%)
Query: 104 LDIARQLAKLGVDIIEAGFP 123
L I L G D +E G P
Sbjct: 34 LKIIDTLIDAGADALELGVP 53
>3jr2_A Hexulose-6-phosphate synthase SGBH; 3-keto-L-gulonate-6-phosphate
decarboxylase, ULAD, niaid,CSG bound, biosynthetic
protein; HET: MSE; 1.80A {Vibrio cholerae} PDB: 3ieb_A*
Length = 218
Score = 28.4 bits (63), Expect = 4.0
Identities = 30/177 (16%), Positives = 55/177 (31%), Gaps = 22/177 (12%)
Query: 97 TLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNAVDAESGYVPVICG 156
+ + +A +A VD+IE G A E +AV T+ N +
Sbjct: 15 QTNLTDAVAVASNVAS-YVDVIEVGTILAFAEGMKAVSTLRHNHPNHILVCDMKT----- 68
Query: 157 LSRCNERDIKTAWEAVKYAKRPRIHTFIATSGIHMEHKLRKT-----KQQVVEIARSM-- 209
D + + T A + I +K + +EI +
Sbjct: 69 ------TDGGAILSRMAFEAGADWITVSAAAHIATIAACKKVADELNGEIQIEIYGNWTM 122
Query: 210 --VKFARSLGCDDVEFSP-EDAGRSDRKFLYEILGEVIKVGATTLNIPDTVGITMPT 263
K LG + DA + + + L ++ ++ A + + T GI
Sbjct: 123 QDAKAWVDLGITQAIYHRSRDAELAGIGWTTDDLDKMRQLSALGIELSITGGIVPED 179
>3bw2_A 2-nitropropane dioxygenase; TIM barrel, oxidoreductase; HET: FMN;
2.10A {Streptomyces ansochromogenes} PDB: 3bw4_A*
3bw3_A*
Length = 369
Score = 28.5 bits (64), Expect = 4.2
Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 17/60 (28%)
Query: 107 ARQLAKLGVDII-----EAG-----FPAASKEDFEAVRTIA--KEVGNAVDAESGYVPVI 154
AR + G D + EAG +S++D + ++ +V AVD +PV+
Sbjct: 158 ARAVEAAGADAVIAQGVEAGGHQGTHRDSSEDDGAGIGLLSLLAQVREAVD-----IPVV 212
>2ekc_A AQ_1548, tryptophan synthase alpha chain; structural genomics,
lyase, NPPSFA, national project on PROT structural and
functional analyses; 2.00A {Aquifex aeolicus}
Length = 262
Score = 28.3 bits (64), Expect = 4.3
Identities = 9/20 (45%), Positives = 13/20 (65%)
Query: 104 LDIARQLAKLGVDIIEAGFP 123
L +++ K G DI+E GFP
Sbjct: 34 LKAFKEVLKNGTDILEIGFP 53
>1laj_A Capsid protein; anti-parallel beta sheets, jelly roll, T=3
icosahedral virus, protein-RNA complex, disulphide
bridge, icosahedral virus; 3.40A {Tomato aspermy virus}
SCOP: b.121.4.5
Length = 217
Score = 27.9 bits (61), Expect = 5.6
Identities = 30/137 (21%), Positives = 51/137 (37%), Gaps = 19/137 (13%)
Query: 16 PTFISSSPKTKANASQLFFHCNNSKPFFKTTISCSLQKPPPSLYPRITATRPEYIPNRIP 75
P +S PK K + Q+ N P F +TI SL++ + E +
Sbjct: 93 PVPVSEYPKKKVSCVQVRL---NPSPKFNSTIWVSLRRLDETTLL-----TSENVFKLFT 144
Query: 76 DPNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRT 135
D V ++ G +K D++ A++G D+ + SK+D
Sbjct: 145 DGLAVLIYQHV------PTGIQPNNKITFDMSNVGAEIG-DMGKYALIVYSKDD----VL 193
Query: 136 IAKEVGNAVDAESGYVP 152
A E+ +D E +P
Sbjct: 194 EADEMVIHIDIEHQRIP 210
>3gg8_A Pyruvate kinase; malaria, genomics, proteomics, glycolysis,
magnesium, transferase, structural genomics, STRU
genomics consortium, SGC; 2.21A {Toxoplasma gondii} PDB:
3eoe_A
Length = 511
Score = 28.3 bits (64), Expect = 6.2
Identities = 14/70 (20%), Positives = 24/70 (34%), Gaps = 21/70 (30%)
Query: 94 PGA-----TLTSKEKLDIARQLAKLGVDIIEAGFPAAS----KEDFEAVRTIAKEVGNAV 144
P + K+K DI +G + I AAS +D +R + G
Sbjct: 196 PNVKVQLPVIGEKDKHDILNFGIPMGCNFI-----AASFVQSADDVRYIRGLLGPRG--- 247
Query: 145 DAESGYVPVI 154
++ +I
Sbjct: 248 ----RHIRII 253
>3khd_A Pyruvate kinase; malaria, structural genomics, structural GE
consortium, SGC, transferase; 2.70A {Plasmodium
falciparum 3D7}
Length = 520
Score = 28.3 bits (64), Expect = 6.3
Identities = 14/70 (20%), Positives = 25/70 (35%), Gaps = 21/70 (30%)
Query: 94 PGA-----TLTSKEKLDIARQLAKLGVDIIEAGFPAAS----KEDFEAVRTIAKEVGNAV 144
P ++ K+K DI +G + I AAS +D +R + G
Sbjct: 205 PNVKVDLPIISEKDKNDILNFAIPMGCNFI-----AASFIQSADDVRLIRNLLGPRG--- 256
Query: 145 DAESGYVPVI 154
++ +I
Sbjct: 257 ----RHIKII 262
>2cf5_A Atccad5, CAD, cinnamyl alcohol dehydrogenase; lignin biosynthesis,
metal-binding, NADP, oxidoreductase, zinc; 2.0A
{Arabidopsis thaliana} PDB: 2cf6_A*
Length = 357
Score = 27.9 bits (63), Expect = 6.3
Identities = 9/25 (36%), Positives = 18/25 (72%), Gaps = 2/25 (8%)
Query: 237 YEILGEVIKVGA--TTLNIPDTVGI 259
+E++GEV++VG+ + + D VG+
Sbjct: 69 HEVVGEVVEVGSDVSKFTVGDIVGV 93
>1ohv_A 4-aminobutyrate aminotransferase; PLP-dependent enzyme, 4- AMIN
acid, antiepileptic drug target; HET: PLP; 2.3A {Sus
scrofa} SCOP: c.67.1.4 PDB: 1ohw_A* 1ohy_A*
Length = 472
Score = 28.0 bits (63), Expect = 6.4
Identities = 19/82 (23%), Positives = 32/82 (39%), Gaps = 7/82 (8%)
Query: 67 PEYIPNRIPDPNYVRVFDTTLRDGEQSPGATLTSKEKLDIARQLAKLGV-DII------E 119
P + P P + +++ +Q L E L + + K V II E
Sbjct: 211 PSFDWPIAPFPRLKYPLEEFVKENQQEEARCLEEVEDLIVKYRKKKKTVAGIIVEPIQSE 270
Query: 120 AGFPAASKEDFEAVRTIAKEVG 141
G AS + F +R I+++ G
Sbjct: 271 GGDNHASDDFFRKLRDISRKHG 292
>3two_A Mannitol dehydrogenase; cinnamyl-alcohol dehydrogenase, NADP(H)
oxidoreductase; HET: NDP; 2.18A {Helicobacter pylori}
Length = 348
Score = 27.9 bits (63), Expect = 6.4
Identities = 9/25 (36%), Positives = 13/25 (52%), Gaps = 2/25 (8%)
Query: 237 YEILGEVIKVGA--TTLNIPDTVGI 259
+EI G + +VG I D VG+
Sbjct: 64 HEIAGIIKEVGKGVKKFKIGDVVGV 88
>3exr_A RMPD (hexulose-6-phosphate synthase); beta barrel, lyase; 1.70A
{Streptococcus mutans} PDB: 3exs_A* 3ext_A
Length = 221
Score = 27.6 bits (61), Expect = 6.5
Identities = 10/45 (22%), Positives = 16/45 (35%), Gaps = 1/45 (2%)
Query: 99 TSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNA 143
K + A + VD+IEAG + E V + +
Sbjct: 16 NLKGAITAAVSVGN-EVDVIEAGTVCLLQVGSELVEVLRSLFPDK 59
>1wbh_A KHG/KDPG aldolase; lyase; 1.55A {Escherichia coli} SCOP: c.1.10.1
PDB: 2c0a_A 1wau_A 1eua_A 1eun_A 1fq0_A* 1fwr_A*
Length = 214
Score = 27.5 bits (61), Expect = 6.7
Identities = 12/46 (26%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 99 TSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNAV 144
+ + +A+ L GV ++ ++ +A+R IAKEV A+
Sbjct: 26 KLEHAVPMAKALVAGGVRVLN--VTLRTECAVDAIRAIAKEVPEAI 69
>1uuf_A YAHK, zinc-type alcohol dehydrogenase-like protein YAHK;
oxidoreductase, zinc binding, oxydoreductase,
metal-binding; 1.76A {Escherichia coli} SCOP: b.35.1.2
c.2.1.1
Length = 369
Score = 28.0 bits (63), Expect = 6.8
Identities = 16/64 (25%), Positives = 23/64 (35%), Gaps = 18/64 (28%)
Query: 214 RSLGCDDVEFSPEDAG--RSDRKFL--------------YEILGEVIKVGA--TTLNIPD 255
R G +DV+ G SD + +EI+G V+ VG D
Sbjct: 43 REPGPNDVKIEIAYCGVCHSDLHQVRSEWAGTVYPCVPGHEIVGRVVAVGDQVEKYAPGD 102
Query: 256 TVGI 259
VG+
Sbjct: 103 LVGV 106
>3t4x_A Oxidoreductase, short chain dehydrogenase/reducta; structural
genomics, center for structural genomics of infec
diseases, csgid; 2.80A {Bacillus anthracis}
Length = 267
Score = 27.5 bits (62), Expect = 7.5
Identities = 8/39 (20%), Positives = 17/39 (43%), Gaps = 2/39 (5%)
Query: 106 IARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNAV 144
IA L G +++ G + E ++ I + +A+
Sbjct: 26 IATSLVAEGANVLINGRREENVN--ETIKEIRAQYPDAI 62
>3lab_A Putative KDPG (2-keto-3-deoxy-6-phosphogluconate) aldolase; unknown
function, aldolase superfamily, class I aldolase, KDPG
aldolase domain; 1.84A {Oleispira antarctica} PDB:
3vcr_A
Length = 217
Score = 27.5 bits (61), Expect = 7.8
Identities = 10/46 (21%), Positives = 19/46 (41%), Gaps = 2/46 (4%)
Query: 99 TSKEKLDIARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNAV 144
+ +A+ L GV ++E ++ A+ I K V A+
Sbjct: 23 DLVHAIPMAKALVAGGVHLLE--VTLRTEAGLAAISAIKKAVPEAI 66
>3ai3_A NADPH-sorbose reductase; rossmann-fold, NADPH-dependent reductase,
short chain dehydrogenase/reductase, oxidoreductase;
HET: NAP SOL SOE; 1.80A {Gluconobacter frateurii} PDB:
3ai2_A* 3ai1_A*
Length = 263
Score = 27.5 bits (62), Expect = 8.2
Identities = 11/41 (26%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 106 IARQLAKLGVDIIEAGFPAASKEDFEAVRTIAKEVGNAVDA 146
IA AK G I+ EA R++ ++ G V
Sbjct: 23 IAEGFAKEGAHIVLVARQVDRLH--EAARSLKEKFGVRVLE 61
>4feg_A Pyruvate oxidase; carbanion, structure activity relationship,
oxidation-reduct umpolung, thiamine diphosphate,
reaction intermediate; HET: TDM FAD GOL; 1.09A
{Lactobacillus plantarum} PDB: 4fee_A* 1y9d_A* 2ez9_A*
2ez4_A* 2ez8_A* 2ezt_A* 2ezu_A* 1pow_A* 1pox_A*
Length = 603
Score = 27.9 bits (63), Expect = 8.9
Identities = 7/54 (12%), Positives = 16/54 (29%), Gaps = 5/54 (9%)
Query: 132 AVRTIAKEVGNAVDAESGYVPVICGLS-----RCNERDIKTAWEAVKYAKRPRI 180
AV I ++ + + + + + + A+RP I
Sbjct: 164 AVVQIPVDLPWQQIPAEDWYASANSYQTPLLPEPDVQAVTRLTQTLLAAERPLI 217
>1req_B Methylmalonyl-COA mutase; isomerase, intramolecular transferase;
HET: B12 DCA; 2.00A {Propionibacterium freudenreichii
subspshermanii} SCOP: c.1.19.1 c.23.6.1 PDB: 1e1c_B*
2req_B* 3req_B* 4req_B* 5req_B* 6req_B* 7req_B*
Length = 637
Score = 27.8 bits (62), Expect = 9.8
Identities = 9/54 (16%), Positives = 20/54 (37%), Gaps = 3/54 (5%)
Query: 130 FEAVRTIAKEVGNAVDA--ESG-YVPVICGLSRCNERDIKTAWEAVKYAKRPRI 180
+ + V+A +SG V +C ++ + +A+K A +
Sbjct: 539 IDTPQVEGGTTAEIVEAFKKSGAQVADLCSSAKVYAQQGLEVAKALKAAGAKAL 592
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
0.318 0.134 0.388
Gapped
Lambda K H
0.267 0.0799 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,871,212
Number of extensions: 441227
Number of successful extensions: 1639
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1560
Number of HSP's successfully gapped: 99
Length of query: 442
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 345
Effective length of database: 3,993,456
Effective search space: 1377742320
Effective search space used: 1377742320
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 (21.7 bits)
S2: 59 (26.4 bits)