RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 015894
(398 letters)
>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 = 515 bits (1328), Expect = 0.0
Identities = 189/295 (64%), Positives = 231/295 (78%)
Query: 95 PGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLLVSSGLAVVEATSFVSPKWVPQLADAK 154
P VKIVEVGPRDGLQNEKNIV VK++LI +L +GL+V+E TSFVSPKWVPQ+ D
Sbjct: 3 PKRVKIVEVGPRDGLQNEKNIVSTPVKIKLIDMLSEAGLSVIETTSFVSPKWVPQMGDHT 62
Query: 155 DVMAAIQNVEGARFPVLTPNLKGFEAAVAAGAKEVAIFASASESFSKSNINCTIEDSLIR 214
+V+ IQ G +PVLTPNLKGFEAAVAAGAKEV IF +ASE F+K NINC+IE+S R
Sbjct: 63 EVLKGIQKFPGINYPVLTPNLKGFEAAVAAGAKEVVIFGAASELFTKKNINCSIEESFQR 122
Query: 215 YRDVALAARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVG 274
+ + AA+ +I VRGY+SC +GCP EG + P+KVA V+K+ Y MGC EISLGDTIGVG
Sbjct: 123 FDAILKAAQSANISVRGYVSCALGCPYEGKISPAKVAEVTKKFYSMGCYEISLGDTIGVG 182
Query: 275 TPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPYA 334
TPG + ML AV+ VP+ LAVH HDTYGQAL+N L +LQMG+S VDSSV+GLGGCPYA
Sbjct: 183 TPGIMKDMLSAVMQEVPLAALAVHCHDTYGQALANTLMALQMGVSVVDSSVAGLGGCPYA 242
Query: 335 KGASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGDFICKHLGRTSGSKTAIALSK 389
+GASGN+ATED+VYML GLG+ T V+++KL+ AG+FIC+ L R + SK A A K
Sbjct: 243 QGASGNLATEDLVYMLEGLGIHTGVNLQKLLEAGNFICQALNRKTSSKVAQATCK 297
>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 = 513 bits (1323), Expect = 0.0
Identities = 132/296 (44%), Positives = 183/296 (61%)
Query: 95 PGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLLVSSGLAVVEATSFVSPKWVPQLADAK 154
P V I EVGPRDGLQNE + K+ I L +GL+ +E TSFV PKW+P L DA
Sbjct: 4 PKKVTIKEVGPRDGLQNEPVWIATEDKITWINQLSRTGLSYIEITSFVHPKWIPALRDAI 63
Query: 155 DVMAAIQNVEGARFPVLTPNLKGFEAAVAAGAKEVAIFASASESFSKSNINCTIEDSLIR 214
DV I +G + L PN +G E A+ G E +F SASE+ ++ NIN + +SL
Sbjct: 64 DVAKGIDREKGVTYAALVPNQRGLENALEGGINEACVFMSASETHNRKNINKSTSESLHI 123
Query: 215 YRDVALAARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVG 274
+ V A++ ++ R YLS V GCP E VP +V +S+ L++ G SE+SLGDTIG
Sbjct: 124 LKQVNNDAQKANLTTRAYLSTVFGCPYEKDVPIEQVIRLSEALFEFGISELSLGDTIGAA 183
Query: 275 TPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPYA 334
P V +LEA+L P +++A+HFHDT G AL+N++ +LQMGI+ D S GLGGCPYA
Sbjct: 184 NPAQVETVLEALLARFPANQIALHFHDTRGTALANMVTALQMGITVFDGSAGGLGGCPYA 243
Query: 335 KGASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGDFICKHLGRTSGSKTAIALSKT 390
G+SGN ATED+VYML + ++TNV + KL+ A +I + +G+ S+ +
Sbjct: 244 PGSSGNAATEDIVYMLEQMDIKTNVKLEKLLSAAKWIEEKMGKPLPSRNLQVFKSS 299
>2ftp_A Hydroxymethylglutaryl-COA lyase; structural genomics, PSI, protein
structure initiativ midwest center for structural
genomics, MCSG; 2.40A {Pseudomonas aeruginosa}
Length = 302
Score = 510 bits (1315), Expect = 0.0
Identities = 169/293 (57%), Positives = 220/293 (75%)
Query: 95 PGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLLVSSGLAVVEATSFVSPKWVPQLADAK 154
P V++VEVGPRDGLQNEK + K+ L+ L ++GL +E SFVSPKWVPQ+A +
Sbjct: 6 PKKVRLVEVGPRDGLQNEKQPIEVADKIRLVDDLSAAGLDYIEVGSFVSPKWVPQMAGSA 65
Query: 155 DVMAAIQNVEGARFPVLTPNLKGFEAAVAAGAKEVAIFASASESFSKSNINCTIEDSLIR 214
+V A I+ G + L PNLKGFEAA+ +G KEVA+FA+ASE+FS+ NINC+I+DSL R
Sbjct: 66 EVFAGIRQRPGVTYAALAPNLKGFEAALESGVKEVAVFAAASEAFSQRNINCSIKDSLER 125
Query: 215 YRDVALAARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVG 274
+ V AAR+ + VRGY+SCV+GCP +G V P +VA+V+++L MGC E+SLGDTIGVG
Sbjct: 126 FVPVLEAARQHQVRVRGYISCVLGCPYDGDVDPRQVAWVARELQQMGCYEVSLGDTIGVG 185
Query: 275 TPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPYA 334
T G ++EAV VP ++LA HFHDTYGQAL+NI ASL GI+ DSSV+GLGGCPYA
Sbjct: 186 TAGATRRLIEAVASEVPRERLAGHFHDTYGQALANIYASLLEGIAVFDSSVAGLGGCPYA 245
Query: 335 KGASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGDFICKHLGRTSGSKTAIAL 387
KGA+GNVA+EDV+Y+LNGL + T VD+ L+ AG IC LG+++GS+ A AL
Sbjct: 246 KGATGNVASEDVLYLLNGLEIHTGVDMHALVDAGQRICAVLGKSNGSRAAKAL 298
>1ydn_A Hydroxymethylglutaryl-COA lyase; TIM-barrel protein, structural
genomics, PSI, protein struct initiative; 2.30A
{Brucella melitensis}
Length = 295
Score = 502 bits (1296), Expect = e-180
Identities = 155/294 (52%), Positives = 195/294 (66%), Gaps = 1/294 (0%)
Query: 95 PGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLLVSSGLAVVEATSFVSPKWVPQLADAK 154
V+IVE+ RDGLQNEK VP K+ LI L G A +EATSFVSPKWVPQLAD++
Sbjct: 2 AEHVEIVEMAARDGLQNEKRFVPTADKIALINRLSDCGYARIEATSFVSPKWVPQLADSR 61
Query: 155 DVMAAIQNVEGARFPVLTPNLKGFEAAVAAGAKEVAIFASASESFSKSNINCTIEDSLIR 214
+VMA I+ +G R+ VL PN+KG+EAA AA A E+A+F SASE FSK+NINCTI +S+ R
Sbjct: 62 EVMAGIRRADGVRYSVLVPNMKGYEAAAAAHADEIAVFISASEGFSKANINCTIAESIER 121
Query: 215 YRDVALAARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVG 274
V AA + +RGY+SCVV CP +G V P VA V++QL+ +GC E+SLGDTIG G
Sbjct: 122 LSPVIGAAINDGLAIRGYVSCVVECPYDGPVTPQAVASVTEQLFSLGCHEVSLGDTIGRG 181
Query: 275 TPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPYA 334
TP TV ML+AVL P LA H+HDT G+AL NI SL+ G+ D+SV GLGGCP+A
Sbjct: 182 TPDTVAAMLDAVLAIAPAHSLAGHYHDTGGRALDNIRVSLEKGLRVFDASVGGLGGCPFA 241
Query: 335 KGASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGDFICKHLGRTSGSKTAIALS 388
GA GNV T VV ML+ +G T +D+ +L AG F L + +
Sbjct: 242 PGAKGNVDTVAVVEMLHEMGFETGLDLDRLRSAGLFTQA-LRQDKAALEHHHHH 294
>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 = 80.0 bits (198), Expect = 8e-17
Identities = 55/283 (19%), Positives = 106/283 (37%), Gaps = 37/283 (13%)
Query: 98 VKIVEVGPRDGLQNEKNIVPAVVKVELIKLLVSSGLAVVEAT------SFVSPKWVPQLA 151
+ I +V RDG ++ + + L + + +E +
Sbjct: 9 LYISDVTLRDGSHAIRHQYTLDDVRAIARALDKAKVDSIEVAHGDGLQGSSFNYGFGRHT 68
Query: 152 DAKDVMAAIQNVEGARFPVLTPNLKG----FEAAVAAGAKEVAIFASASESFSKSNINCT 207
D + + A + A+ L G + A AGA+ V + +CT
Sbjct: 69 DLEYIEAVAGEISHAQIATLLLPGIGSVHDLKNAYQAGARVVRVA-----------THCT 117
Query: 208 IEDSLIRYRDVALAARELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISL 267
D ++ + AR L + G+ + M+P K+A K + G + I +
Sbjct: 118 EADVSKQHIE---YARNLGMDTVGF------LMMSHMIPAEKLAEQGKLMESYGATCIYM 168
Query: 268 GDTIGVGTPGTVIPMLEAVLDAVPVD-KLAVHFHDTYGQALSNILASLQMGISTVDSSVS 326
D+ G + + + A + + ++ +H H ++N + +++ G VD+S++
Sbjct: 169 ADSGGAMSMNDIRDRMRAFKAVLKPETQVGMHAHHNLSLGVANSIVAVEEGCDRVDASLA 228
Query: 327 GLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGD 369
G+G GA GN E + + LG D+ LM A D
Sbjct: 229 GMG-----AGA-GNAPLEVFIAVAERLGWNHGTDLYTLMDAAD 265
>3dxi_A Putative aldolase; TIM barrel, 11107N, PSI2, NYSGXRC, structural
genomics, protein structure initiative; 2.04A
{Bacteroides vulgatus atcc 8482}
Length = 320
Score = 73.2 bits (180), Expect = 1e-14
Identities = 52/278 (18%), Positives = 89/278 (32%), Gaps = 57/278 (20%)
Query: 98 VKIVEVGPRDGLQNEKNIVPAVVKVELIKLLVSSGLAVVEATSFVSPKWVPQLADAKDVM 157
+ +EVG R+ E V ++K L +S K + + + K+
Sbjct: 38 IDYLEVGYRNKPSKEYMGKFGYTPVSVLKHL-----------RNISTKKIAIMLNEKNTT 86
Query: 158 AAIQNVEGARFPVLTPNLKGFEAAVAAGAKEVAIFASASESFSKSNINCTIEDSLIRYRD 217
+L + + I NI+ I L +
Sbjct: 87 PE--------------DLNHLLLPIIGLVDMIRIA------IDPQNIDRAIV--LAKA-- 122
Query: 218 VALAARELSIPVRGYLSCVVGCPVEGM--VPPSKVAYVSKQLYDMGCSEISLGDTIGVGT 275
+ + G+ VG V M + D + D+ G T
Sbjct: 123 ----IKTM-----GFE---VGFNVMYMSKWAEMNGFLSKLKAIDKIADLFCMVDSFGGIT 170
Query: 276 PGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPYAK 335
P V +L+ V V + H HD L N + ++ GI +D++++G+G +
Sbjct: 171 PKEVKNLLKEVRKYTHVP-VGFHGHDNLQLGLINSITAIDDGIDFIDATITGMG-----R 224
Query: 336 GASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGDFICK 373
GA GN+ E ++ LN NVD L
Sbjct: 225 GA-GNLKMELLLTYLN-KHHGLNVDFNVLGNIITTFTP 260
>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 = 60.1 bits (145), Expect = 7e-10
Identities = 84/450 (18%), Positives = 136/450 (30%), Gaps = 185/450 (41%)
Query: 5 KSLDKFSRSALSPLMSNLKESLGVAKFASVGVNS---LKG----GNLDYTREKTISRKQV 57
L KFS LS L ++ +L K + G+N L+ + DY
Sbjct: 185 GDLIKFSAETLSEL---IRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIP------ 235
Query: 58 RNVSCTNLNGYLSKAHYSSSCTDNSTKDLTSKLLGRVPGFVKIVEVGPRDGLQ----NEK 113
+SC L G + AHY + KLLG PG E+ R L+ + +
Sbjct: 236 --ISC-PLIGVIQLAHYVVTA----------KLLGFTPG-----EL--RSYLKGATGHSQ 275
Query: 114 NIVPAVV-------------KVELIKLLVSSGLAVVEAT--SFVSPKWV----------- 147
+V AV + I +L G+ EA + + P +
Sbjct: 276 GLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP 335
Query: 148 -PQLA---------------------DAKDVMAAIQNVEGARFPVLT--PN-LKGF---- 178
P L+ K V ++ N GA+ V++ P L G
Sbjct: 336 SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVN--GAKNLVVSGPPQSLYGLNLTL 393
Query: 179 -EAAVAAGAKEVAI-FASASESFSKS--NINC------------TIEDSLIRYRDVALAA 222
+A +G + I F+ FS + I L++ +V+ A
Sbjct: 394 RKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVK-NNVSFNA 452
Query: 223 RELSIPVRGYLSCVVGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVGTPGTVIPM 282
+++ IPV Y +G +S+++ D
Sbjct: 453 KDIQIPV--Y------DTFDGSDLRVLSGSISERIVDCIIRL------------------ 486
Query: 283 LEAVLDAVPVD-KLAVHFHDTYGQALSNILASLQMGISTVDSSVSGLGGCPYAKGASGNV 341
PV + F T+ IL G SGLG
Sbjct: 487 --------PVKWETTTQFKATH------ILD---FG----PGGASGLG------------ 513
Query: 342 ATEDVVY-MLNGLGVRTNVDIRKLMIAGDF 370
+ + +G GVR +++AG
Sbjct: 514 ---VLTHRNKDGTGVR-------VIVAGTL 533
Score = 59.7 bits (144), Expect = 9e-10
Identities = 75/438 (17%), Positives = 137/438 (31%), Gaps = 165/438 (37%)
Query: 38 SLKGGNLDYTREKTISRKQVRNVSCTNLNGYLS--KAHYSSSC---TDNSTKD--LTSK- 89
+L G+L E + V T S + ++ T+ D T+
Sbjct: 10 TLSHGSL----EHVLL------VP-TASFFIASQLQEQFNKILPEPTEGFAADDEPTTPA 58
Query: 90 -LLGRVPGFV-KIVEVGPRDGLQNEKNIVPAVVKVEL------------IKLLVSSGLAV 135
L+G+ G+V +VE ++ V+ + L I L + L
Sbjct: 59 ELVGKFLGYVSSLVE-------PSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQE 111
Query: 136 VEATSFVSPKWVPQLADAKDVMAAIQNVEGARFPVLTPNLKG-----FEAAVAAGAKEVA 190
+ T L K++ I+N AR P K F A A+ VA
Sbjct: 112 NDTT----------LVKTKEL---IKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVA 158
Query: 191 IF----------------------------ASASE---SFSKSNINCTIEDSLIRYRDVA 219
IF ++E ++ ++ E + ++
Sbjct: 159 IFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDA--EKVFTQGLNIL 216
Query: 220 --LAARELSIPVRGYL-SCVVGCPVEGMVPPSKVAYVSKQL--YDMGCSEISLGDTIGVG 274
L + P + YL S + CP+ G++ QL Y + +G
Sbjct: 217 EWLENPS-NTPDKDYLLSIPISCPLIGVI----------QLAHYVVTAK------LLGF- 258
Query: 275 TPGTVIPML-------EAVLDAVPVDKLAV-----HFHDTYGQALSNILASLQMGI---- 318
TPG + L + ++ AV + A F + +A++ +L +G+
Sbjct: 259 TPGELRSYLKGATGHSQGLVTAVAI---AETDSWESFFVSVRKAIT-VL--FFIGVRCYE 312
Query: 319 ---------STVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKLMIAGD 369
S ++ S+ G P S M L + N+ ++ +
Sbjct: 313 AYPNTSLPPSILEDSLENNEGVP-----S---------PM---LSIS-NLTQEQVQDYVN 354
Query: 370 FICKHLGRTSGSKTAIAL 387
HL +G + I+L
Sbjct: 355 KTNSHLP--AGKQVEISL 370
Score = 47.4 bits (112), Expect = 7e-06
Identities = 44/227 (19%), Positives = 72/227 (31%), Gaps = 71/227 (31%)
Query: 178 FEAAVAAGAKEVAIFASASESFSKSNINCTIED-----SLIRYRDVALAARELSIPVRGY 232
FE V K IF +E + T S ++ AL E +
Sbjct: 1693 FETIVDGKLKTEKIFKEINEHSTS----YTFRSEKGLLSATQFTQPALTLMEKAA-FEDL 1747
Query: 233 LSCVVGCPVEGMVPPSKV----------AYVSKQLYDMGCSE-ISLGDTIGV----GTPG 277
S +G++P A S ++ +S+ + V G
Sbjct: 1748 KS-------KGLIPADATFAGHSLGEYAALAS-------LADVMSIESLVEVVFYRG--- 1790
Query: 278 TVIPMLEAVLDAVPVDKLAVHFHDTYGQALSN---ILASL-QMGISTVDSSVSGLGG--- 330
+ AVP D+L YG N + AS Q + V V G
Sbjct: 1791 ------MTMQVAVPRDELG---RSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLV 1841
Query: 331 ------CP---YAKGASGNV-ATEDVVYMLNGLGVRTNVDIRKLMIA 367
Y A+G++ A + V +LN + ++ +DI +L +
Sbjct: 1842 EIVNYNVENQQYV--AAGDLRALDTVTNVLNFIKLQ-KIDIIELQKS 1885
Score = 30.4 bits (68), Expect = 1.4
Identities = 24/155 (15%), Positives = 46/155 (29%), Gaps = 46/155 (29%)
Query: 243 GMVPPSKVAY----VSKQLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAVPVDKLAVH 298
GM Y ++ +++ + DT G +L+ V++ PV L +H
Sbjct: 1630 GM---GMDLYKTSKAAQDVWNRADN--HFKDTYG-------FSILDIVINN-PV-NLTIH 1675
Query: 299 FHDTYGQALSNILASLQMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTN 358
F G+ + +++ + G + TE + + N
Sbjct: 1676 FGGEKGKRIRENYSAMI-----------------FETIVDGKLKTEKIFKEI-------N 1711
Query: 359 VDIRKLMIAGDFICKHLGRTSGSKTAIALSKTSTA 393
+ L T T AL+ A
Sbjct: 1712 EHSTSYTFRSE--KGLLSAT--QFTQPALTLMEKA 1742
Score = 28.1 bits (62), Expect = 7.4
Identities = 15/53 (28%), Positives = 18/53 (33%), Gaps = 12/53 (22%)
Query: 7 LDKF---SRSALSPLMSNLKESLGVAKFASVGVNSLKGGNLDYTREKTISRKQ 56
LD F S L L K+ G V V + G LD + KQ
Sbjct: 502 LD-FGPGGASGLGVLTHRNKDGTG------VRV--IVAGTLDINPDDDYGFKQ 545
>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 = 57.6 bits (140), Expect = 3e-09
Identities = 52/280 (18%), Positives = 102/280 (36%), Gaps = 38/280 (13%)
Query: 98 VKIVEVGPRDGLQNEKNIVPAVV-----KVELIKLLVSSGLAVVEATS-FVSPKWVPQLA 151
I+E R+G Q K+++ K L + G+ +E TS S
Sbjct: 40 FSIIESTLREGEQ-----FANAFFDTEKKIQIAKALDNFGVDYIELTSPVASE------Q 88
Query: 152 DAKDVMAAIQNVEGARFPVLT-PNLKGFEAAVAAGAKEVAIFASASESFSKSNINCTIED 210
+D A + + ++ AV G V + S+ K + +
Sbjct: 89 SRQDCEAICKLGLKCKILTHIRCHMDDARVAVETGVDGVDVVIGTSQYLRKYSHGKDMTY 148
Query: 211 SLIRYRDVALAARELSIPVRGYLSCVVGCPVE--GMVPPSKVAYVSKQLYDMGCSEISLG 268
+ +V + I VR S E + + K + +G + + +
Sbjct: 149 IIDSATEVINFVKSKGIEVR--FSS------EDSFRSDLVDLLSLYKAVDKIGVNRVGIA 200
Query: 269 DTIGVGTPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGISTVDSSVSGL 328
DT+G TP V ++ + V D + HFH+ G A++N +L+ G + +D+S+ G+
Sbjct: 201 DTVGCATPRQVYDLIRTLRGVVSCD-IECHFHNDTGMAIANAYCALEAGATHIDTSILGI 259
Query: 329 GGCPYAKGASGNVATEDVV---YMLNGLGVRTNVDIRKLM 365
G +G ++ Y+ + + + +L
Sbjct: 260 G------ERNGITPLGALLARMYVTDREYITHKYKLNQLR 293
>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 = 55.7 bits (135), Expect = 1e-08
Identities = 33/122 (27%), Positives = 51/122 (41%), Gaps = 21/122 (17%)
Query: 252 YVS--KQLYDMGCSEISLGDTIGVGTPGT----VIPMLEAVLDAVPVDKLAVHFHDTYGQ 305
YV QL DMG I+L D + P + + + ++ +H H T G
Sbjct: 177 YVKLAGQLLDMGADSIALKDMAALLKPQPAYDIIKAIKDTYGQKTQIN---LHCHSTTGV 233
Query: 306 ALSNILASLQMGISTVD---SSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIR 362
+++ +++ G+ VD SS+S G TE V ML G G TN+D
Sbjct: 234 TEVSLMKAIEAGVDVVDTAISSMSLGPGHN---------PTESVAEMLEGTGYTTNLDYD 284
Query: 363 KL 364
+L
Sbjct: 285 RL 286
>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 = 54.5 bits (132), Expect = 2e-08
Identities = 26/112 (23%), Positives = 46/112 (41%), Gaps = 12/112 (10%)
Query: 259 DMGCSEISLGDTIGVGTPGTVIPMLEAVLDAVPVDK--LAVHFHDTYGQALSNILASLQM 316
+ L DT+GV TP V ++ V V + + H H+ G A++N +++
Sbjct: 155 APYVDRVGLADTVGVATPRQVYALVREVRRVVG-PRVDIEFHGHNDTGCAIANAYEAIEA 213
Query: 317 GISTVDSSVSGLGGCPYAKGASGNVATEDVV---YMLNGLGVRTNVDIRKLM 365
G + VD+++ G+G +G + Y L VR + L
Sbjct: 214 GATHVDTTILGIG------ERNGITPLGGFLARMYTLQPEYVRRKYKLEMLP 259
>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 = 54.5 bits (132), Expect = 3e-08
Identities = 40/121 (33%), Positives = 60/121 (49%), Gaps = 21/121 (17%)
Query: 252 YVS--KQLYDMGCSEISLGDTIGVGTP---GTVIPMLEAVLDAVPVDKLAVHFHDTYGQA 306
+V +QL ++G I+L D G+ TP ++ L+ +D V + +H H T G A
Sbjct: 160 WVDVAQQLAELGVDSIALKDMAGILTPYAAEELVSTLKKQVD-VELH---LHCHSTAGLA 215
Query: 307 LSNILASLQMGISTVD---SSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRK 363
+L +++ G+ VD SS+SG G P ATE +V L G G T +DI K
Sbjct: 216 DMTLLKAIEAGVDRVDTAISSMSGTYGHP---------ATESLVATLQGTGYDTGLDIAK 266
Query: 364 L 364
L
Sbjct: 267 L 267
>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 = 52.5 bits (127), Expect = 9e-08
Identities = 24/108 (22%), Positives = 51/108 (47%), Gaps = 7/108 (6%)
Query: 259 DMGCSEISLGDTIGVGTPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQMGI 318
I L DT+GV +P +++++ P H H+ Y +++N L +++ G+
Sbjct: 180 KEHIERIFLPDTLGVLSPEETFQGVDSLIQKYPDIHFEFHGHNDYDLSVANSLQAIRAGV 239
Query: 319 STVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGL-GVRTNVDIRKLM 365
+ +S++GLG +GN E +V ++ +TN++ +
Sbjct: 240 KGLHASINGLG------ERAGNTPLEALVTTIHDKSNSKTNINEIAIT 281
>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 = 50.8 bits (122), Expect = 5e-07
Identities = 24/118 (20%), Positives = 47/118 (39%), Gaps = 14/118 (11%)
Query: 252 YVS--KQLYDMGCSEISLGDTIGVGTP---GTVIPMLEAVLDAVPVDKLAVHFHDTYGQA 306
Y+ ++L G + + D G+ P ++ L +P+ +H HDT G
Sbjct: 263 YMGLAEELVRAGTHILCIKDMAGLLKPTACTMLVSSLRDRFPDLPLH---IHTHDTSGAG 319
Query: 307 LSNILASLQMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKL 364
++ +LA Q G VD + + G + + +V G + T V + ++
Sbjct: 320 VAAMLACAQAGADVVDVAADSMSGM------TSQPSMGALVACTRGTPLDTEVPMERV 371
>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 = 49.9 bits (118), Expect = 1e-06
Identities = 63/341 (18%), Positives = 117/341 (34%), Gaps = 89/341 (26%)
Query: 80 DNSTKDLTSKLLGRVPGFVKIVEVG-----PRDGLQNE--KNIVPAVVKVE----LIKLL 128
KD+ S FV + P+ L E +I+ + V L L
Sbjct: 15 QYQYKDILSVFE---DAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTL 71
Query: 129 VSSGLAVVEATSFVSPKWVPQLADAKD---VMAAIQNVEGARFPVLTPNLKGFEAAVAAG 185
+S +V+ FV + +M+ I+ R P + + +
Sbjct: 72 LSKQEEMVQK--FVEE------VLRINYKFLMSPIKTE--QRQP--SMMTRMYI------ 113
Query: 186 AKEVAIFASASESFSKSNINCTIEDSLIRYRDVALAARELSIPVRGYLSCVVGCPVEGMV 245
++ + ++ F+K N+ + ++ R A EL P + V+ ++G++
Sbjct: 114 -EQRDRLYNDNQVFAKYNV--SRLQPYLKLRQ---ALLELR-PAKN----VL---IDGVL 159
Query: 246 PPSK---VAYVSKQLYDMGCSE------ISLGDTIGVGTPGTVIPMLEAVLDAVPVDKLA 296
K V Y + C ++L + +P TV+ ML+ KL
Sbjct: 160 GSGKTWVALDVCLS-YKVQCKMDFKIFWLNLKN---CNSPETVLEMLQ---------KLL 206
Query: 297 VHFHDTYGQALSNILASLQMGISTVDSSVSGL-GGCPYAKGASGNVATEDVVYMLNGLGV 355
D + S+ +++++ I ++ + + L PY N L V
Sbjct: 207 YQI-DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYE----------------NCLLV 249
Query: 356 RTNVDIRKLMIAGDFICKHLGRTSGSKTAIALSKTSTANAS 396
NV K A + CK L T + LS +T + S
Sbjct: 250 LLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHIS 290
Score = 41.8 bits (97), Expect = 4e-04
Identities = 58/330 (17%), Positives = 104/330 (31%), Gaps = 88/330 (26%)
Query: 23 KESLGVAKFASVGVNSLKGGNLDYTREKTISRKQVRNVSCTNLNGYLSKAHYSSSCTDNS 82
K+ V KF V + N + + ++ ++ + + DN
Sbjct: 74 KQEEMVQKF----VEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY-----NDN- 123
Query: 83 TKDLTSKL-LGRVPGFVKIVEVGPRDGLQN---EKNIVPAVV-------KVELIKLLVSS 131
+ +K + R+ ++K+ R L KN++ + K + L V
Sbjct: 124 --QVFAKYNVSRLQPYLKL-----RQALLELRPAKNVL---IDGVLGSGKTWVA-LDVCL 172
Query: 132 GLAVVEATSF-VSPKW--VPQLADAKDVMAAIQNVEGARFPVLTPNLKGFEAAVAAGAKE 188
V F + W + + V+ +Q + + PN
Sbjct: 173 SYKVQCKMDFKIF--WLNLKNCNSPETVLEMLQKL----LYQIDPNWT------------ 214
Query: 189 VAIFASASESFSKSNINCTIEDSLIRYRDVALAARELSIPVRGYLSC------V------ 236
S S SNI I I+ R L + + Y +C V
Sbjct: 215 -------SRSDHSSNIKLRIHS--IQAEL-----RRL-LKSKPYENCLLVLLNVQNAKAW 259
Query: 237 ----VGCPVEGMVPPSKVAYVSKQLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAVPV 292
+ C + ++ ++ V+ L + ISL TP V +L LD
Sbjct: 260 NAFNLSCKI--LLT-TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLD-CRP 315
Query: 293 DKLAVHFHDTYGQALSNILASLQMGISTVD 322
L T + LS I S++ G++T D
Sbjct: 316 QDLPREVLTTNPRRLSIIAESIRDGLATWD 345
>3eeg_A 2-isopropylmalate synthase; 11106D, beta barrel, PSI-II, structural
genomics, protein structure initiative; 2.78A {Cytophaga
hutchinsonii atcc 33406}
Length = 325
Score = 45.6 bits (109), Expect = 1e-05
Identities = 34/112 (30%), Positives = 59/112 (52%), Gaps = 13/112 (11%)
Query: 261 GCSEISLGDTIGVGTPGTVIPMLEAVLDAVP-VDK--LAVHFHDTYGQALSNILASLQMG 317
G +++ DT G P ++ ++D V +DK L+ H H+ G A +N LA+LQ G
Sbjct: 164 GADVVNIPDTTGYMLPWQYGERIKYLMDNVSNIDKAILSAHCHNDLGLATANSLAALQNG 223
Query: 318 ISTVDSSVSGLGGCPYAKGASGNVATEDVVYML----NGLGVRTNVDIRKLM 365
V+ +++G+G +GN A E+VV + LG+ T ++ +KL+
Sbjct: 224 ARQVECTINGIG------ERAGNTALEEVVMAMECHKETLGLETGINHKKLV 269
>3rmj_A 2-isopropylmalate synthase; LEUA, truncation, neisseria MENI TIM
barrel, catalytic domain, dimer, leucine biosynthesis,
ketoisovalerate; 1.95A {Neisseria meningitidis}
Length = 370
Score = 46.0 bits (110), Expect = 1e-05
Identities = 30/114 (26%), Positives = 55/114 (48%), Gaps = 13/114 (11%)
Query: 259 DMGCSEISLGDTIGVGTPGTVIPMLEAVLDAVP-VDK--LAVHFHDTYGQALSNILASLQ 315
+ G + I++ DT+G P ++ P K + H H+ G A++N LA+L+
Sbjct: 168 EAGATTINIPDTVGYSIPYKTEEFFRELIAKTPNGGKVVWSAHCHNDLGLAVANSLAALK 227
Query: 316 MGISTVDSSVSGLGGCPYAKGASGNVATEDVVYMLN----GLGVRTNVDIRKLM 365
G V+ +V+GLG +GN + E++V L G+ T +D +++
Sbjct: 228 GGARQVECTVNGLG------ERAGNASVEEIVMALKVRHDLFGLETGIDTTQIV 275
>3ewb_X 2-isopropylmalate synthase; LEUA, structural genomics, unknown
function, amino-acid biosynthesis; 2.10A {Listeria
monocytogenes str}
Length = 293
Score = 44.4 bits (106), Expect = 3e-05
Identities = 28/112 (25%), Positives = 51/112 (45%), Gaps = 13/112 (11%)
Query: 261 GCSEISLGDTIGVGTPGTVIPMLEAVLDAVP-VDK--LAVHFHDTYGQALSNILASLQMG 317
G + I++ DT+G P + + + + D A H HD G A +N LA+++ G
Sbjct: 163 GATVINIPDTVGYTNPTEFGQLFQDLRREIKQFDDIIFASHCHDDLGMATANALAAIENG 222
Query: 318 ISTVDSSVSGLGGCPYAKGASGNVATEDVVYML----NGLGVRTNVDIRKLM 365
V+ +++G+G +GN A E+V L + TN+ + +
Sbjct: 223 ARRVEGTINGIG------ERAGNTALEEVAVALHIRKDFYQAETNIVLNQFK 268
>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 = 45.0 bits (107), Expect = 4e-05
Identities = 25/114 (21%), Positives = 52/114 (45%), Gaps = 11/114 (9%)
Query: 253 VSKQLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAV--PVDKLAVHFHDTYGQALSNI 310
++K+L G +++ D G+ P ++ + AV P+ +H HDT G L
Sbjct: 697 LAKELEREGFHILAIKDMAGLLKPKAAYELIGELKSAVDLPIH---LHTHDTSGNGLLTY 753
Query: 311 LASLQMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKL 364
++ G+ +D++V+ + G ++ ++ + + Y LNG DI +
Sbjct: 754 KQAIDAGVDIIDTAVASMSGL-TSQPSANS-----LYYALNGFPRHLRTDIEGM 801
>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 = 42.7 bits (101), Expect = 2e-04
Identities = 27/114 (23%), Positives = 53/114 (46%), Gaps = 11/114 (9%)
Query: 253 VSKQLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAV--PVDKLAVHFHDTYGQALSNI 310
++ +L G I++ D G+ P + +A+ +A P+ H HDT G A + +
Sbjct: 714 LAVELEKAGAHIIAVKDMAGLLKPAAAKVLFKALREATGLPIH---FHTHDTSGIAAATV 770
Query: 311 LASLQMGISTVDSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKL 364
LA+++ G+ VD+++ L G ++ G +V L+G +D +
Sbjct: 771 LAAVEAGVDAVDAAMDALSGN-TSQPCLG-----SIVEALSGSERDPGLDPAWI 818
>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 = 34.8 bits (80), Expect = 0.049
Identities = 20/104 (19%), Positives = 39/104 (37%), Gaps = 9/104 (8%)
Query: 265 ISLGDTIGVGTPGTVIPMLEAVLDAVP-VDK--LAVHFHDTYGQALSNILASLQMGISTV 321
+L T+ + TP +E + + + L++H H+ G A++ G +
Sbjct: 249 FNLPATVEMTTPNVYADSIEWMSRNLANRESVILSLHPHNDRGTAVAAAELGFAAGADRI 308
Query: 322 DSSVSGLGGCPYAKGASGNVATEDVVYMLNGLGVRTNVDIRKLM 365
+ + G G +GNV + L GV +D +
Sbjct: 309 EGCLFGNG------ERTGNVCLVTLGLNLFSRGVDPQIDFSNID 346
>1luc_A Bacterial luciferase; monooxygenase, flavoprotein; 1.50A {Vibrio
harveyi} SCOP: c.1.16.1 PDB: 1brl_A 3fgc_A*
Length = 355
Score = 34.3 bits (79), Expect = 0.060
Identities = 12/44 (27%), Positives = 23/44 (52%), Gaps = 2/44 (4%)
Query: 273 VGTPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQM 316
VGTP I +++ +DA +D + F + I+AS+++
Sbjct: 301 VGTPEECIAIIQQDIDATGIDNICCGFE--ANGSEEEIIASMKL 342
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 32.6 bits (74), Expect = 0.22
Identities = 32/178 (17%), Positives = 63/178 (35%), Gaps = 24/178 (13%)
Query: 69 LSKAHYSSSCTDNSTKDLTSKLLGRVPGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLL 128
+ S C K + G+ VKI + + + P+++ ++
Sbjct: 399 VKNKDLKSPCELAIEK---TFSFGKTKKNVKINIFEKE---EGKNLLGPSILN----EIY 448
Query: 129 VSSG--LAVVEATSFVSPKWVPQLADAKD--VMAAIQNVEGARFPVLTPNLKGFEAAVAA 184
V G + + E+ V ++ L K V I+ ++ F + E A +
Sbjct: 449 VYDGNVIGIPESFDGVKEEFKDFLEKGKSEGVATGIRYIDALCFKIT----SKLEEAFVS 504
Query: 185 GAKEVAIFASASESFSKSNINCTIEDSLIRYRDVALAARELSIPVRGYLSCVVGCPVE 242
E + S S +IN I+D ++ + ++ I VRG + V +E
Sbjct: 505 NTTEFKVKVPIVRSLS--DINLKIDDIALKQ----IMSKNKVIDVRGPVFLNVEVKIE 556
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 31.9 bits (72), Expect = 0.38
Identities = 32/178 (17%), Positives = 63/178 (35%), Gaps = 24/178 (13%)
Query: 69 LSKAHYSSSCTDNSTKDLTSKLLGRVPGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLL 128
+ S C K + G+ VKI + + + P+++ ++
Sbjct: 399 VKNKDLKSPCELAIEK---TFSFGKTKKNVKINIFEKE---EGKNLLGPSILN----EIY 448
Query: 129 VSSG--LAVVEATSFVSPKWVPQLADAKD--VMAAIQNVEGARFPVLTPNLKGFEAAVAA 184
V G + + E+ V ++ L K V I+ ++ F + E A +
Sbjct: 449 VYDGNVIGIPESFDGVKEEFKDFLEKGKSEGVATGIRYIDALCFKIT----SKLEEAFVS 504
Query: 185 GAKEVAIFASASESFSKSNINCTIEDSLIRYRDVALAARELSIPVRGYLSCVVGCPVE 242
E + S S +IN I+D ++ + ++ I VRG + V +E
Sbjct: 505 NTTEFKVKVPIVRSLS--DINLKIDDIALKQ----IMSKNKVIDVRGPVFLNVEVKIE 556
>2odr_A Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 665
Score = 30.7 bits (69), Expect = 0.86
Identities = 32/178 (17%), Positives = 63/178 (35%), Gaps = 24/178 (13%)
Query: 69 LSKAHYSSSCTDNSTKDLTSKLLGRVPGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLL 128
+ S C K + G+ VKI + + + P+++ ++
Sbjct: 399 VKNKDLKSPCELAIEK---TFSFGKTKKNVKINIFEKE---EGKNLLGPSILN----EIY 448
Query: 129 VSSG--LAVVEATSFVSPKWVPQLADAKD--VMAAIQNVEGARFPVLTPNLKGFEAAVAA 184
V G + + E+ V ++ L K V I+ ++ F + E A +
Sbjct: 449 VYDGNVIGIPESFDGVKEEFKDFLEKGKSEGVATGIRYIDALCFKIT----SKLEEAFVS 504
Query: 185 GAKEVAIFASASESFSKSNINCTIEDSLIRYRDVALAARELSIPVRGYLSCVVGCPVE 242
E + S S +IN I+D ++ + ++ I VRG + V +E
Sbjct: 505 NTTEFKVKVPIVRSLS--DINLKIDDIALKQ----IMSKNKVIDVRGPVFLNVEVKIE 556
>1mvh_A Cryptic LOCI regulator 4; lysine methyltransferase, CLR4,
SET-domain; 2.30A {Schizosaccharomyces pombe} SCOP:
b.85.7.1 PDB: 1mvx_A
Length = 299
Score = 30.2 bits (68), Expect = 1.1
Identities = 7/21 (33%), Positives = 8/21 (38%), Gaps = 4/21 (19%)
Query: 352 GLGVRTNVDIRKLMIAGDFIC 372
G GVR+ G FI
Sbjct: 148 GWGVRSLRFAPA----GTFIT 164
>1ml9_A Histone H3 methyltransferase DIM-5; adoMet-dependent
methyltransferase histone H3 lysine- 9 methylation;
1.98A {Neurospora crassa} SCOP: b.85.7.1 PDB: 1peg_A*
Length = 302
Score = 29.9 bits (67), Expect = 1.2
Identities = 9/25 (36%), Positives = 16/25 (64%), Gaps = 4/25 (16%)
Query: 352 GLGVRTNVDIRKLMIAGDFICKHLG 376
G GV+ V+I++ G F+ ++LG
Sbjct: 144 GWGVKCPVNIKR----GQFVDRYLG 164
>2odr_B Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 648
Score = 30.3 bits (68), Expect = 1.4
Identities = 32/178 (17%), Positives = 63/178 (35%), Gaps = 24/178 (13%)
Query: 69 LSKAHYSSSCTDNSTKDLTSKLLGRVPGFVKIVEVGPRDGLQNEKNIVPAVVKVELIKLL 128
+ S C K + G+ VKI + + + P+++ ++
Sbjct: 399 VKNKDLKSPCELAIEK---TFSFGKTKKNVKINIFEKE---EGKNLLGPSILN----EIY 448
Query: 129 VSSG--LAVVEATSFVSPKWVPQLADAKD--VMAAIQNVEGARFPVLTPNLKGFEAAVAA 184
V G + + E+ V ++ L K V I+ ++ F + E A +
Sbjct: 449 VYDGNVIGIPESFDGVKEEFKDFLEKGKSEGVATGIRYIDALCFKIT----SKLEEAFVS 504
Query: 185 GAKEVAIFASASESFSKSNINCTIEDSLIRYRDVALAARELSIPVRGYLSCVVGCPVE 242
E + S S +IN I+D ++ + ++ I VRG + V +E
Sbjct: 505 NTTEFKVKVPIVRSLS--DINLKIDDIALKQ----IMSKNKVIDVRGPVFLNVEVKIE 556
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 29.1 bits (64), Expect = 1.4
Identities = 10/51 (19%), Positives = 18/51 (35%), Gaps = 22/51 (43%)
Query: 112 EKNIVPAVVKVEL-IKLLVSSGLAVVEATSFVSPKWVPQLADAKDVMAAIQ 161
EK A+ K++ +KL + P LA + A ++
Sbjct: 18 EKQ---ALKKLQASLKLY--------------ADDSAPALA----IKATME 47
Score = 28.0 bits (61), Expect = 3.6
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 13/38 (34%)
Query: 174 NLKGFEAAVAAGAKEVAIFA--SASESFSKSNINCTIE 209
LK +A++ K ++A SA + + I T+E
Sbjct: 21 ALKKLQASL----K---LYADDSAP-ALA---IKATME 47
>3hna_A Histone-lysine N-methyltransferase, H3 lysine-9 specific 5; EHMT1,
structural genomics, SGC, structural genomics
consortium, alternative splicing, ANK repeat; HET: MLZ
SAH; 1.50A {Homo sapiens} PDB: 2rfi_A* 2igq_A* 3mo0_A*
3mo2_A* 3mo5_A* 3sw9_A* 3swc_A* 3fpd_A* 3k5k_A* 3nni_A*
3rjw_A* 2o8j_A*
Length = 287
Score = 29.5 bits (66), Expect = 1.7
Identities = 10/25 (40%), Positives = 15/25 (60%), Gaps = 4/25 (16%)
Query: 352 GLGVRTNVDIRKLMIAGDFICKHLG 376
G GVR+ DI G F+C+++G
Sbjct: 158 GWGVRSLQDIPP----GTFVCEYVG 178
>3ay3_A NAD-dependent epimerase/dehydratase; glucuronic acid dehydrogeanse,
oxidoreductase; 2.10A {Chromohalobacter salexigens}
Length = 267
Score = 29.6 bits (67), Expect = 1.8
Identities = 17/63 (26%), Positives = 28/63 (44%), Gaps = 16/63 (25%)
Query: 150 LADAKDVMAAIQN-----------VEGARFPVLTPNLKG----FEAAVAAGAKEVAIFAS 194
LADA+ V +++ VE +L N+ G +EAA G + +FAS
Sbjct: 51 LADAQAVHDLVKDCDGIIHLGGVSVERPWNDILQANIIGAYNLYEAARNLGKPRI-VFAS 109
Query: 195 ASE 197
++
Sbjct: 110 SNH 112
>1mzh_A Deoxyribose-phosphate aldolase; alpha-beta barrel, structural
genomics, PSI, protein structure initiative; 2.00A
{Aquifex aeolicus} SCOP: c.1.10.1
Length = 225
Score = 29.1 bits (66), Expect = 2.1
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 9/57 (15%)
Query: 138 ATSFVSPKWVPQLADA-KDVMAAIQNVEGARFP--VLTPNLKGFEA--AVAAGAKEV 189
V+P V + K V V G FP + ++K EA AV GA+E+
Sbjct: 35 YAVCVNPYHVKLASSIAKKVKVCC--VIG--FPLGLNKTSVKVKEAVEAVRDGAQEL 87
>3ope_A Probable histone-lysine N-methyltransferase ASH1L; SET, nucleus;
HET: SAM; 2.90A {Homo sapiens}
Length = 222
Score = 28.8 bits (65), Expect = 2.2
Identities = 9/25 (36%), Positives = 14/25 (56%), Gaps = 4/25 (16%)
Query: 352 GLGVRTNVDIRKLMIAGDFICKHLG 376
G G+RT ++ G FI ++LG
Sbjct: 85 GWGIRTKEPLKA----GQFIIEYLG 105
>1luc_B Bacterial luciferase; monooxygenase, flavoprotein; 1.50A {Vibrio
harveyi} SCOP: c.1.16.1 PDB: 1brl_B 1bsl_A 1xkj_A
3fgc_B*
Length = 324
Score = 28.9 bits (65), Expect = 2.6
Identities = 5/44 (11%), Positives = 13/44 (29%), Gaps = 2/44 (4%)
Query: 273 VGTPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQM 316
+GT ++ L + F + + A + +
Sbjct: 273 IGTYEESTQAARVAIECCGAADLLMSFES--MEDKAQQRAVIDV 314
>3h6l_A Histone-lysine N-methyltransferase SETD2; SET domain-containing
protein 2, S-adenos methionine, structural genomics,
structural genomics consor SGC; HET: SAM; 1.99A {Homo
sapiens}
Length = 278
Score = 29.0 bits (65), Expect = 2.7
Identities = 6/25 (24%), Positives = 11/25 (44%), Gaps = 4/25 (16%)
Query: 352 GLGVRTNVDIRKLMIAGDFICKHLG 376
G G+R D+ F+ ++ G
Sbjct: 128 GWGLRAAKDLPS----NTFVLEYCG 148
>3f9x_A Histone-lysine N-methyltransferase SETD8; methyltransferase, SET,
lysine, alternative splicing, cell cycle, cell division,
chromatin regulator, chromosomal protein, coiled coil;
HET: MLY SAH; 1.25A {Homo sapiens} PDB: 3f9w_A* 3f9y_A*
3f9z_A* 1zkk_A* 2bqz_A*
Length = 166
Score = 28.1 bits (63), Expect = 3.8
Identities = 6/21 (28%), Positives = 8/21 (38%), Gaps = 4/21 (19%)
Query: 352 GLGVRTNVDIRKLMIAGDFIC 372
G GV + GDF+
Sbjct: 41 GRGVIATKQFSR----GDFVV 57
>3ooi_A Histone-lysine N-methyltransferase, H3 lysine-36 lysine-20
specific; SET domain, S-adenosyl-L methionine; HET: SAM;
1.75A {Homo sapiens}
Length = 232
Score = 28.1 bits (63), Expect = 4.6
Identities = 10/25 (40%), Positives = 17/25 (68%), Gaps = 4/25 (16%)
Query: 352 GLGVRTNVDIRKLMIAGDFICKHLG 376
G G+RT DI+K G+F+ +++G
Sbjct: 103 GWGLRTKTDIKK----GEFVNEYVG 123
>3ndo_A Deoxyribose-phosphate aldolase; ssgcid, NIH, niaid, SBRI, UW,
emerald biostructures, ALS collaborative
crystallography; HET: GOL; 1.25A {Mycobacterium
smegmatis} PDB: 3ng3_A
Length = 231
Score = 27.9 bits (63), Expect = 4.7
Identities = 22/52 (42%), Positives = 24/52 (46%), Gaps = 6/52 (11%)
Query: 142 VSPKWVPQLADAKDVMAAIQNVEGARFP--VLTPNLKGFEA--AVAAGAKEV 189
VSP V A AI V G FP P +K EA AVAAGA E+
Sbjct: 48 VSPPLVSVAAGVAPSGLAIAAVAG--FPSGKHVPGIKATEAELAVAAGATEI 97
>1p1x_A Deoxyribose-phosphate aldolase; alpha-beta barrel, TIM barrel,
lyase; 0.99A {Escherichia coli} SCOP: c.1.10.1 PDB:
1jcl_A 1jcj_A* 1ktn_A 3npv_B 3npu_A 3npw_A 3nq2_A 3npx_A
3nq8_A 3q2d_A* 3nr0_A 3nqv_A
Length = 260
Score = 28.0 bits (63), Expect = 4.8
Identities = 14/56 (25%), Positives = 22/56 (39%), Gaps = 10/56 (17%)
Query: 142 VSPKWVP----QLADAKDVMAAIQNVEGARFP--VLTPNLKGFEA--AVAAGAKEV 189
+ P+++P L + I V FP ++ E A+A GA EV
Sbjct: 49 IYPRFIPIARKTLKEQGTPEIRIATVTN--FPHGNDDIDIALAETRAAIAYGADEV 102
>3bo5_A Histone-lysine N-methyltransferase setmar; SET domain, chromati
regulator, DNA damage, DNA repair, DNA-binding, nucleus,
ST genomics; HET: SAH; 1.59A {Homo sapiens}
Length = 290
Score = 27.9 bits (62), Expect = 5.2
Identities = 10/25 (40%), Positives = 14/25 (56%), Gaps = 4/25 (16%)
Query: 352 GLGVRTNVDIRKLMIAGDFICKHLG 376
G G+RT I K G F+C++ G
Sbjct: 137 GWGLRTLEFIPK----GRFVCEYAG 157
>2i7g_A Monooxygenase, AGR_C_4197P; alpha-beta, TIM barrel, helix-bundle,
structural genomics, P protein structure initiative;
HET: MSE; 1.73A {Agrobacterium tumefaciens str}
Length = 376
Score = 28.2 bits (63), Expect = 5.8
Identities = 5/44 (11%), Positives = 13/44 (29%), Gaps = 1/44 (2%)
Query: 273 VGTPGTVIPMLEAVLDAVPVDKLAVHFHDTYGQALSNILASLQM 316
+G P V + D+ + I+ +++
Sbjct: 308 LGEPELVAEKIIKAHGVFKNDRFLLQM-AIGLMPHDQIMRGIEL 350
>1vcv_A Probable deoxyribose-phosphate aldolase; DERA, hyperthermophIle,
archaea, lyase; 2.00A {Pyrobaculum aerophilum} SCOP:
c.1.10.1
Length = 226
Score = 27.6 bits (62), Expect = 5.8
Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 8/52 (15%)
Query: 142 VSPKWVPQLADA-KDVMAAIQNVEGARFP--VLTPNLKGFEA-AVAAGAKEV 189
V+P + P + + V V FP L + +A A E+
Sbjct: 36 VNPIYAPVVRPLLRKVKLC--VVAD--FPFGALPTASRIALVSRLAEVADEI 83
>3mwc_A Mandelate racemase/muconate lactonizing protein; enolase,
structural genomics, protein structure initiative,
nysgrc; 1.80A {Kosmotoga olearia}
Length = 400
Score = 27.3 bits (61), Expect = 8.5
Identities = 18/157 (11%), Positives = 46/157 (29%), Gaps = 36/157 (22%)
Query: 137 EATSFVSPKWVPQLADAKDVMAAIQNVEGARFPVLTPNLKGFEAAVAAGAKEVAIFASAS 196
E+ F P ++ + + ++N L P + G E +
Sbjct: 52 ESAPFEEPFYLGETLET--TKVILKNH-------LLPMILGKEPLSIEEFNHLIKNGIRG 102
Query: 197 ESFSKSNINCTIEDSLIRYRDVAL---AARELSIPVRGYLSCVVGCPVEGMVPPSKVAYV 253
F++ + + A A++ I ++ + + V
Sbjct: 103 NHFARCGV------------ENAYWDLIAKKNKISLKAMI----E----KKMKNLGVKQE 142
Query: 254 SKQLYDMGCSEISLGDTIGVGTPGTVIPMLEAVLDAV 290
+ I G +G+ G + ++ V +++
Sbjct: 143 YLASNN----YIESGAALGIPEDGRIETLIHQVEESL 175
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
0.315 0.131 0.365
Gapped
Lambda K H
0.267 0.0676 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,731,665
Number of extensions: 354919
Number of successful extensions: 918
Number of sequences better than 10.0: 1
Number of HSP's gapped: 904
Number of HSP's successfully gapped: 58
Length of query: 398
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 302
Effective length of database: 4,021,377
Effective search space: 1214455854
Effective search space used: 1214455854
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: 58 (26.2 bits)