RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 014369
(426 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 = 513 bits (1323), Expect = 0.0
Identities = 188/297 (63%), Positives = 231/297 (77%)
Query: 123 IPRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADA 182
+P+ VKIVEVGPRDGLQNEKN V T VK++LI L +GL V+E TSFVSPKWVPQ+ D
Sbjct: 2 LPKRVKIVEVGPRDGLQNEKNIVSTPVKIKLIDMLSEAGLSVIETTSFVSPKWVPQMGDH 61
Query: 183 RDVMEAVRDLEGARLPVLTPNLKGFEAAIAAGAKEVAIFASASEAFSKSNINCSIEDSLV 242
+V++ ++ G PVLTPNLKGFEAA+AAGAKEV IF +ASE F+K NINCSIE+S
Sbjct: 62 TEVLKGIQKFPGINYPVLTPNLKGFEAAVAAGAKEVVIFGAASELFTKKNINCSIEESFQ 121
Query: 243 RYRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGV 302
R+ A+ AA+ +I VRGYVSC +GCP EG I P+KVA V K+ + MGC+EISLGDTIGV
Sbjct: 122 RFDAILKAAQSANISVRGYVSCALGCPYEGKISPAKVAEVTKKFYSMGCYEISLGDTIGV 181
Query: 303 GTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPY 362
GTPG + ML AVM VP+ LAVH HDTYGQ+L N L++LQMG+S VD SVAGLGGCPY
Sbjct: 182 GTPGIMKDMLSAVMQEVPLAALAVHCHDTYGQALANTLMALQMGVSVVDSSVAGLGGCPY 241
Query: 363 AKGASGNVATEDVVYMLSGLGVETNVDLRKLMLAGDFINKHLGRPSGSKTAIALNRI 419
A+GASGN+ATED+VYML GLG+ T V+L+KL+ AG+FI + L R + SK A A ++
Sbjct: 242 AQGASGNLATEDLVYMLEGLGIHTGVNLQKLLEAGNFICQALNRKTSSKVAQATCKL 298
>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 = 510 bits (1315), Expect = 0.0
Identities = 129/296 (43%), Positives = 180/296 (60%)
Query: 123 IPRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADA 182
P+ V I EVGPRDGLQNE + T K+ I +L +GL +E TSFV PKW+P L DA
Sbjct: 3 YPKKVTIKEVGPRDGLQNEPVWIATEDKITWINQLSRTGLSYIEITSFVHPKWIPALRDA 62
Query: 183 RDVMEAVRDLEGARLPVLTPNLKGFEAAIAAGAKEVAIFASASEAFSKSNINCSIEDSLV 242
DV + + +G L PN +G E A+ G E +F SASE ++ NIN S +SL
Sbjct: 63 IDVAKGIDREKGVTYAALVPNQRGLENALEGGINEACVFMSASETHNRKNINKSTSESLH 122
Query: 243 RYRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGV 302
+ V + A+ ++ R Y+S V GCP E +P +V +++ L + G E+SLGDTIG
Sbjct: 123 ILKQVNNDAQKANLTTRAYLSTVFGCPYEKDVPIEQVIRLSEALFEFGISELSLGDTIGA 182
Query: 303 GTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPY 362
P V +LEA++A P ++A+H HDT G +L N++ +LQMGI+ D S GLGGCPY
Sbjct: 183 ANPAQVETVLEALLARFPANQIALHFHDTRGTALANMVTALQMGITVFDGSAGGLGGCPY 242
Query: 363 AKGASGNVATEDVVYMLSGLGVETNVDLRKLMLAGDFINKHLGRPSGSKTAIALNR 418
A G+SGN ATED+VYML + ++TNV L KL+ A +I + +G+P S+
Sbjct: 243 APGSSGNAATEDIVYMLEQMDIKTNVKLEKLLSAAKWIEEKMGKPLPSRNLQVFKS 298
>2ftp_A Hydroxymethylglutaryl-COA lyase; structural genomics, PSI, protein
structure initiativ midwest center for structural
genomics, MCSG; 2.40A {Pseudomonas aeruginosa}
Length = 302
Score = 507 bits (1309), Expect = 0.0
Identities = 166/294 (56%), Positives = 215/294 (73%)
Query: 123 IPRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADA 182
+P+ V++VEVGPRDGLQNEK + K+ L+ L ++GL +E SFVSPKWVPQ+A +
Sbjct: 5 LPKKVRLVEVGPRDGLQNEKQPIEVADKIRLVDDLSAAGLDYIEVGSFVSPKWVPQMAGS 64
Query: 183 RDVMEAVRDLEGARLPVLTPNLKGFEAAIAAGAKEVAIFASASEAFSKSNINCSIEDSLV 242
+V +R G L PNLKGFEAA+ +G KEVA+FA+ASEAFS+ NINCSI+DSL
Sbjct: 65 AEVFAGIRQRPGVTYAALAPNLKGFEAALESGVKEVAVFAAASEAFSQRNINCSIKDSLE 124
Query: 243 RYRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGV 302
R+ V AA+ + VRGY+SCV+GCP +G + P +VA+VA+EL MGC+E+SLGDTIGV
Sbjct: 125 RFVPVLEAARQHQVRVRGYISCVLGCPYDGDVDPRQVAWVARELQQMGCYEVSLGDTIGV 184
Query: 303 GTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPY 362
GT G ++EAV + VP E+LA H HDTYGQ+L NI SL GI+ D SVAGLGGCPY
Sbjct: 185 GTAGATRRLIEAVASEVPRERLAGHFHDTYGQALANIYASLLEGIAVFDSSVAGLGGCPY 244
Query: 363 AKGASGNVATEDVVYMLSGLGVETNVDLRKLMLAGDFINKHLGRPSGSKTAIAL 416
AKGA+GNVA+EDV+Y+L+GL + T VD+ L+ AG I LG+ +GS+ A AL
Sbjct: 245 AKGATGNVASEDVLYLLNGLEIHTGVDMHALVDAGQRICAVLGKSNGSRAAKAL 298
>1ydn_A Hydroxymethylglutaryl-COA lyase; TIM-barrel protein, structural
genomics, PSI, protein struct initiative; 2.30A
{Brucella melitensis}
Length = 295
Score = 500 bits (1290), Expect = e-179
Identities = 155/295 (52%), Positives = 196/295 (66%), Gaps = 1/295 (0%)
Query: 123 IPRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADA 182
+ V+IVE+ RDGLQNEK VPT K+ LI RL G +EATSFVSPKWVPQLAD+
Sbjct: 1 MAEHVEIVEMAARDGLQNEKRFVPTADKIALINRLSDCGYARIEATSFVSPKWVPQLADS 60
Query: 183 RDVMEAVRDLEGARLPVLTPNLKGFEAAIAAGAKEVAIFASASEAFSKSNINCSIEDSLV 242
R+VM +R +G R VL PN+KG+EAA AA A E+A+F SASE FSK+NINC+I +S+
Sbjct: 61 REVMAGIRRADGVRYSVLVPNMKGYEAAAAAHADEIAVFISASEGFSKANINCTIAESIE 120
Query: 243 RYRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGV 302
R V AA + +RGYVSCVV CP +G + P VA V ++L +GC E+SLGDTIG
Sbjct: 121 RLSPVIGAAINDGLAIRGYVSCVVECPYDGPVTPQAVASVTEQLFSLGCHEVSLGDTIGR 180
Query: 303 GTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPY 362
GTP TV ML+AV+A+ P LA H HDT G++L NI +SL+ G+ D SV GLGGCP+
Sbjct: 181 GTPDTVAAMLDAVLAIAPAHSLAGHYHDTGGRALDNIRVSLEKGLRVFDASVGGLGGCPF 240
Query: 363 AKGASGNVATEDVVYMLSGLGVETNVDLRKLMLAGDFINKHLGRPSGSKTAIALN 417
A GA GNV T VV ML +G ET +DL +L AG F + L + + +
Sbjct: 241 APGAKGNVDTVAVVEMLHEMGFETGLDLDRLRSAGLFT-QALRQDKAALEHHHHH 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 = 81.6 bits (202), Expect = 3e-17
Identities = 62/294 (21%), Positives = 107/294 (36%), Gaps = 40/294 (13%)
Query: 127 VKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEAT------SFVSPKWVPQLA 180
+ I +V RDG ++ + R L + + +E +
Sbjct: 9 LYISDVTLRDGSHAIRHQYTLDDVRAIARALDKAKVDSIEVAHGDGLQGSSFNYGFGRHT 68
Query: 181 DARDVMEAVRDLEGARLPVLTPNLKG----FEAAIAAGAKEVAIFASASEAFSKSNINCS 236
D + ++ A++ L G + A AGA+ V + +C+
Sbjct: 69 DLEYIEAVAGEISHAQIATLLLPGIGSVHDLKNAYQAGARVVRVA-----------THCT 117
Query: 237 IEDSLVRYRAVAHAAKVLSIPVRGYVSCVVG-CPVEGAIPPSKVAYVAKELHDMGCFEIS 295
D V + + +A R VG + IP K+A K + G I
Sbjct: 118 EAD--VSKQHIEYA--------RNLGMDTVGFLMMSHMIPAEKLAEQGKLMESYGATCIY 167
Query: 296 LGDTIGVGTPGTVVPMLEAVMAVVPVE-KLAVHLHDTYGQSLPNILISLQMGISTVDCSV 354
+ D+ G + + + A AV+ E ++ +H H + N +++++ G VD S+
Sbjct: 168 MADSGGAMSMNDIRDRMRAFKAVLKPETQVGMHAHHNLSLGVANSIVAVEEGCDRVDASL 227
Query: 355 AGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKLM-LAGDFINKHLGRP 407
AG+G GA GN E + + LG DL LM A D + RP
Sbjct: 228 AGMG-----AGA-GNAPLEVFIAVAERLGWNHGTDLYTLMDAADDIVRPLQDRP 275
>3dxi_A Putative aldolase; TIM barrel, 11107N, PSI2, NYSGXRC, structural
genomics, protein structure initiative; 2.04A
{Bacteroides vulgatus atcc 8482}
Length = 320
Score = 69.3 bits (170), Expect = 3e-13
Identities = 41/285 (14%), Positives = 81/285 (28%), Gaps = 36/285 (12%)
Query: 127 VKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEAT-------SFVSPKWVPQL 179
+KI++ RDG + + I + + +E ++ +
Sbjct: 3 LKILDCTLRDGGYYTNWDFNSKIVDAYILAMNELPIDYLEVGYRNKPSKEYMGKFGYTPV 62
Query: 180 ADARDVMEAVRDLEGARLPVLTPNLKGFEAAIAAGAKEVAIFASASEAFSKSNINCSIED 239
+ + + ++ ++ + I ++
Sbjct: 63 SVLKHLRNIST----KKIAIM------LNEKNTTPEDLNHLLLPIIGLVDMIRIAIDPQN 112
Query: 240 SLVRYRAVAHAAKVLSIPVRGYVSCVVGCPVEGA--IPPSKVAYVAKELHDMGCFEISLG 297
G+ VG V + D +
Sbjct: 113 IDRAIVLAKAIKT------MGFE---VGFNVMYMSKWAEMNGFLSKLKAIDKIADLFCMV 163
Query: 298 DTIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGL 357
D+ G TP V +L+ V V + H HD L N + ++ GI +D ++ G+
Sbjct: 164 DSFGGITPKEVKNLLKEVRKYTHVP-VGFHGHDNLQLGLINSITAIDDGIDFIDATITGM 222
Query: 358 GGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKLMLAGDFINK 402
G +GA GN+ E ++ L+ NVD L
Sbjct: 223 G-----RGA-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 = 58.9 bits (142), Expect = 2e-09
Identities = 82/440 (18%), Positives = 135/440 (30%), Gaps = 171/440 (38%)
Query: 80 DSFSRRTVSLGRNHKMFGS-ACDI---YNSNCNDKDIRDITNKFLKGIPRFVKIVEVGPR 135
D++S R ++L +H GS + S +++ +F K +P P
Sbjct: 2 DAYSTRPLTL--SH---GSLEHVLLVPTASFFIASQLQE---QFNKILPE--------PT 45
Query: 136 DGL--QNEKNTVPTGVKVELIRR---LVSSGLPVVEATSFVSPKWVPQLA---------D 181
+G +E PT EL+ + VSS +VE + V L +
Sbjct: 46 EGFAADDE----PTTP-AELVGKFLGYVSS---LVEPSKVGQFDQVLNLCLTEFENCYLE 97
Query: 182 ARDVMEAVRDLEG------------------ARLPVLTPNLKG-----FEAAIAAGAKEV 218
D+ L AR+ P K F A A+ V
Sbjct: 98 GNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV 157
Query: 219 AIFA----------------SASEAFSKSNINCSIE--DSLVRYRAVA--HAAKVLSI-- 256
AIF I S E L+R A + L+I
Sbjct: 158 AIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE 217
Query: 257 --------PVRGY-VSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGVGTPGT 307
P + Y +S + CP+ G + + + ++ +G TPG
Sbjct: 218 WLENPSNTPDKDYLLSIPISCPLIG-------------VIQLAHYVVTA-KLLGF-TPGE 262
Query: 308 VVPMLEA--------VMAVVPVE-----------KLAVHL--------HDTYGQSLPNIL 340
+ L+ V AV E + A+ + ++ Y PN
Sbjct: 263 LRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAY----PNTS 318
Query: 341 ISLQMGISTVDCSVAGLGGCPYAKGASGNVATEDVVYMLS--GLGVETNVDLRKLMLAGD 398
+ + ++ S+ G P S MLS L T ++ + +
Sbjct: 319 LPPSI----LEDSLENNEGVP-----S---------PMLSISNL---TQEQVQDYV---N 354
Query: 399 FINKHLGRPSGSKTAIAL-N 417
N HL P+G + I+L N
Sbjct: 355 KTNSHL--PAGKQVEISLVN 372
Score = 57.8 bits (139), Expect = 4e-09
Identities = 61/347 (17%), Positives = 88/347 (25%), Gaps = 142/347 (40%)
Query: 36 GMGMGSCWIEGSSCSTSNSYDEDYDEYT--REAFPWRR---HTRDMSHGDSFSRRTVSLG 90
GMGM + Y ++ W R H +D ++G FS + +
Sbjct: 1630 GMGM-----------------DLYKTSKAAQDV--WNRADNHFKD-TYG--FSILDIVIN 1667
Query: 91 RNHK----MFG--SACDI---YNSNC--NDKDIRDITNKFLKGI-PRFVKIVEVGPRDGL 138
N FG I Y++ D + T K K I + L
Sbjct: 1668 -NPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLL 1726
Query: 139 QNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADARDVMEAVRDL--EGAR 196
+ T P L A DL +G
Sbjct: 1727 SATQFTQP---------ALT--------LME----------------KAAFEDLKSKG-- 1751
Query: 197 LPVLTPNLKGF------E-AAIAAGAKEVAIFASASEAFSKSNINCSIED--SLVRYR-- 245
L P F E AA+A+ A + SIE +V YR
Sbjct: 1752 ---LIPADATFAGHSLGEYAALASLA----------DVM-------SIESLVEVVFYRGM 1791
Query: 246 AVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVA----------YVAKELHDMGCF-EI 294
+ A + Y AI P +VA V + G EI
Sbjct: 1792 TMQVAVPRDELGRSNYGMI--------AINPGRVAASFSQEALQYVVERVGKRTGWLVEI 1843
Query: 295 ----SLGDTIGVGTPGTVVPMLEAVMAV--------VPVEKLAVHLH 329
G + L+ V V + + +L L
Sbjct: 1844 VNYNVENQQYVAA--GDLRA-LDTVTNVLNFIKLQKIDIIELQKSLS 1887
Score = 55.1 bits (132), Expect = 3e-08
Identities = 62/346 (17%), Positives = 107/346 (30%), Gaps = 113/346 (32%)
Query: 97 GS-----ACDIYNSNCNDKDIRDITNKFLKGIPRF--VKIVEVGPRDGLQNEKNTVPTGV 149
GS D+Y ++ +D+ + + K F + IV P G
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPV-----NLTIHFGGE 1679
Query: 150 KVELIRRLVSSGLPVVEATSFVSPKWVPQLADARDVMEAVRDLEGARLPVLTPNLKGFEA 209
K + IR S A F + D + E + T F +
Sbjct: 1680 KGKRIRENYS-------AMIFETI------VDGKLKTEKIFKEINEHSTSYT-----FRS 1721
Query: 210 -------------AIAAGAKEVAIFASASEAFSKSNINC----SI-EDSLVRYRAVAHAA 251
A+ E A F S+ E Y A+A A
Sbjct: 1722 EKGLLSATQFTQPALTL--MEKAAFEDLKSKGLIPADATFAGHSLGE-----YAALASLA 1774
Query: 252 KVLSIP--VRGYVSCVV---GCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGVGTPG 306
V+SI V VV G ++ A+P + + + + M I + PG
Sbjct: 1775 DVMSIESLVE-----VVFYRGMTMQVAVPRDE---LGRSNYGM----------IAIN-PG 1815
Query: 307 TVVPML--EAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCP--- 361
V EA+ V VE+ + + G +
Sbjct: 1816 RVAASFSQEALQYV--VER-----------------VGKRTGWL---VEIVNY-NVENQQ 1852
Query: 362 YAKGASGNV-ATEDVVYMLSGLGVETNVDLRKLM--LAGDFINKHL 404
Y A+G++ A + V +L+ + ++ +D+ +L L+ + + HL
Sbjct: 1853 YV--AAGDLRALDTVTNVLNFIKLQ-KIDIIELQKSLSLEEVEGHL 1895
Score = 36.2 bits (83), Expect = 0.027
Identities = 75/421 (17%), Positives = 119/421 (28%), Gaps = 188/421 (44%)
Query: 4 LEEPLGLDKLP----------SMSTIDRIQRFSS--NACRPSGDGMGMGSCWIEGSS--- 48
LE P P S I IQ + + G G +++G++
Sbjct: 219 LENP---SNTPDKDYLLSIPISCPLIGVIQ-LAHYVVTAKLLGFTPGELRSYLKGATGHS 274
Query: 49 --------CSTSNSYDEDYDEYTREA----FPW---RRHTRDMSHGDSFSRRTV------ 87
+ ++S+ E + R+A F + R + +++ ++
Sbjct: 275 QGLVTAVAIAETDSW-ESFFVSVRKAITVLF-FIGVRCY-------EAYPNTSLPPSILE 325
Query: 88 -SLGRNHK----MFGSACDIYNSNCNDKDIRDI---TNKFLKG-----I-----PR-FVK 128
SL N M + SN + ++D TN L I + V
Sbjct: 326 DSLENNEGVPSPML--SI----SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV- 378
Query: 129 IVEV-G-PRD--GLQN--EKNTVPTGV---KVELIRRLVSSGLPVVEATSFVSPKWVPQL 179
V G P+ GL K P+G+ ++ R F
Sbjct: 379 ---VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERK-----LKFS-NRF--------- 420
Query: 180 ADARDVMEAVRDLEGARLPVLTPNLKGFEAAIAAGAKEVAIFASASEAFSKSNINCSIED 239
LPV +P F + + A ++ I
Sbjct: 421 -----------------LPVASP----FHSHLLVPASDL------------------INK 441
Query: 240 SLVRYRAVAHAAKVLSIPV---------RGY--------VSCVVGCPV--EGAIPPSKVA 280
LV+ V+ AK + IPV R V C++ PV E
Sbjct: 442 DLVK-NNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVKWETTTQ----- 495
Query: 281 YVAKELH--DMGCFEISLGDTIGVGT------PGTVVPMLEAVMAVVPVEKLAVHLHDTY 332
K H D G G G+G GT V V+ L ++ D Y
Sbjct: 496 --FKATHILDFG-----PGGASGLGVLTHRNKDGTGV-------RVIVAGTLDINPDDDY 541
Query: 333 G 333
G
Sbjct: 542 G 542
>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 = 54.9 bits (133), Expect = 3e-08
Identities = 30/122 (24%), Positives = 52/122 (42%), Gaps = 21/122 (17%)
Query: 281 YV--AKELHDMGCFEISLGDTIGVGTP---GTVVPML-EAVMAVVPVEKLAVHLHDTYGQ 334
YV A +L DMG I+L D + P ++ + + + +H H T G
Sbjct: 177 YVKLAGQLLDMGADSIALKDMAALLKPQPAYDIIKAIKDTYGQKTQIN---LHCHSTTGV 233
Query: 335 SLPNILISLQMGISTVDCSV---AGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLR 391
+ +++ +++ G+ VD ++ + G TE V ML G G TN+D
Sbjct: 234 TEVSLMKAIEAGVDVVDTAISSMSLGPGHN---------PTESVAEMLEGTGYTTNLDYD 284
Query: 392 KL 393
+L
Sbjct: 285 RL 286
>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 = 52.3 bits (126), Expect = 1e-07
Identities = 49/292 (16%), Positives = 102/292 (34%), Gaps = 30/292 (10%)
Query: 124 PRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATS-FVSPKWVPQLADA 182
I+E R+G Q T K+++ + L + G+ +E TS S
Sbjct: 37 VNNFSIIESTLREGEQFANAFFDTEKKIQIAKALDNFGVDYIELTSPVASE------QSR 90
Query: 183 RDVMEAVRDLEGARLPVLT-PNLKGFEAAIAAGAKEVAIFASASEAFSKSNINCSIEDSL 241
+D + ++ ++ A+ G V + S+ K + + +
Sbjct: 91 QDCEAICKLGLKCKILTHIRCHMDDARVAVETGVDGVDVVIGTSQYLRKYSHGKDMTYII 150
Query: 242 VR-YRAVAHAAKVLSIPVRGYVSCVVGCPVEGAI--PPSKVAYVAKELHDMGCFEISLGD 298
+ K I VR S E + + + K + +G + + D
Sbjct: 151 DSATEVINFV-KSKGIEVR--FSS------EDSFRSDLVDLLSLYKAVDKIGVNRVGIAD 201
Query: 299 TIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLG 358
T+G TP V ++ + VV + + H H+ G ++ N +L+ G + +D S+ G+G
Sbjct: 202 TVGCATPRQVYDLIRTLRGVVSCD-IECHFHNDTGMAIANAYCALEAGATHIDTSILGIG 260
Query: 359 GCPYAKGASGNVATEDVV---YMLSGLGVETNVDLRKLMLAGDFINKHLGRP 407
+G ++ Y+ + L +L + + +
Sbjct: 261 ------ERNGITPLGALLARMYVTDREYITHKYKLNQLRELENLVADAVEVQ 306
>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 = 51.4 bits (124), Expect = 3e-07
Identities = 33/120 (27%), Positives = 58/120 (48%), Gaps = 19/120 (15%)
Query: 281 YV--AKELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVV--PVEKLAVHLHDTYGQSL 336
+V A++L ++G I+L D G+ TP ++ + V + +H H T G +
Sbjct: 160 WVDVAQQLAELGVDSIALKDMAGILTPYAAEELVSTLKKQVDVELH---LHCHSTAGLAD 216
Query: 337 PNILISLQMGISTVDCSV---AGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKL 393
+L +++ G+ VD ++ +G G P ATE +V L G G +T +D+ KL
Sbjct: 217 MTLLKAIEAGVDRVDTAISSMSGTYGHP---------ATESLVATLQGTGYDTGLDIAKL 267
>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 = 51.1 bits (123), Expect = 4e-07
Identities = 31/141 (21%), Positives = 52/141 (36%), Gaps = 26/141 (18%)
Query: 270 VEGAI--------PPSKV----AYV--AKELHDMGCFEISLGDTIGVGTP---GTVVPML 312
VE AI P Y+ A+EL G + + D G+ P +V L
Sbjct: 240 VEAAISYTGDVADPSRTKYSLQYYMGLAEELVRAGTHILCIKDMAGLLKPTACTMLVSSL 299
Query: 313 EAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPYAKGASGNVAT 372
+P+ +H HDT G + +L Q G VD + + G + +
Sbjct: 300 RDRFPDLPLH---IHTHDTSGAGVAAMLACAQAGADVVDVAADSMSGM------TSQPSM 350
Query: 373 EDVVYMLSGLGVETNVDLRKL 393
+V G ++T V + ++
Sbjct: 351 GALVACTRGTPLDTEVPMERV 371
>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 = 49.8 bits (120), Expect = 7e-07
Identities = 55/287 (19%), Positives = 98/287 (34%), Gaps = 40/287 (13%)
Query: 135 RDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATS-FVSPKWVPQLADARDVMEAVRDLE 193
R+G Q EK T KVE+ + L G+ +E T+ SP +D
Sbjct: 12 REGEQFEKANFSTQDKVEIAKALDEFGIEYIEVTTPVASP------QSRKDAEVLASLGL 65
Query: 194 GARLPVLT-PNLKGFEAAIAAGAKEVAIFASASEAFSKSNINCSIEDSLVR-YRAVAHAA 251
A++ L + A+ G + + + S+ + ++ I + +A+
Sbjct: 66 KAKVVTHIQCRLDAAKVAVETGVQGIDLLFGTSK-YLRAPHGRDIPRIIEEAKEVIAYI- 123
Query: 252 KVLSIPVRGYVSCVVGCPVEGAIPP-----SKVAYVAK--ELHDMGCFEISLGDTIGVGT 304
R VE S+ + E + L DT+GV T
Sbjct: 124 -------REA-----APHVEVRFSAEDTFRSEEQDLLAVYEAVAPYVDRVGLADTVGVAT 171
Query: 305 PGTVVPMLEAVMAVVPVE-KLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGLGGCPYA 363
P V ++ V VV + H H+ G ++ N +++ G + VD ++ G+G
Sbjct: 172 PRQVYALVREVRRVVGPRVDIEFHGHNDTGCAIANAYEAIEAGATHVDTTILGIG----- 226
Query: 364 KGASGNVATEDVV---YMLSGLGVETNVDLRKLMLAGDFINKHLGRP 407
+G + Y L V L L + + +G
Sbjct: 227 -ERNGITPLGGFLARMYTLQPEYVRRKYKLEMLPELDRMVARMVGVE 272
>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 = 46.4 bits (111), Expect = 9e-06
Identities = 23/98 (23%), Positives = 45/98 (45%), Gaps = 7/98 (7%)
Query: 298 DTIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQMGISTVDCSVAGL 357
DT+GV +P +++++ P H H+ Y S+ N L +++ G+ + S+ GL
Sbjct: 190 DTLGVLSPEETFQGVDSLIQKYPDIHFEFHGHNDYDLSVANSLQAIRAGVKGLHASINGL 249
Query: 358 GGCPYAKGASGNVATEDVVYML-SGLGVETNVDLRKLM 394
G +GN E +V + +TN++ +
Sbjct: 250 G------ERAGNTPLEALVTTIHDKSNSKTNINEIAIT 281
>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 = 46.9 bits (112), Expect = 1e-05
Identities = 24/112 (21%), Positives = 51/112 (45%), Gaps = 7/112 (6%)
Query: 282 VAKELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILI 341
+AKEL G +++ D G+ P ++ + + V + + +H HDT G L
Sbjct: 697 LAKELEREGFHILAIKDMAGLLKPKAAYELIGELKSAVDL-PIHLHTHDTSGNGLLTYKQ 755
Query: 342 SLQMGISTVDCSVAGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKL 393
++ G+ +D +VA + G ++ ++ + + Y L+G D+ +
Sbjct: 756 AIDAGVDIIDTAVASMSGL-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 = 43.8 bits (104), Expect = 1e-04
Identities = 27/114 (23%), Positives = 49/114 (42%), Gaps = 11/114 (9%)
Query: 282 VAKELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVV--PVEKLAVHLHDTYGQSLPNI 339
+A EL G I++ D G+ P + +A+ P+ H HDT G + +
Sbjct: 714 LAVELEKAGAHIIAVKDMAGLLKPAAAKVLFKALREATGLPIH---FHTHDTSGIAAATV 770
Query: 340 LISLQMGISTVDCSVAGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKL 393
L +++ G+ VD ++ L G ++ G +V LSG + +D +
Sbjct: 771 LAAVEAGVDAVDAAMDALSGN-TSQPCLG-----SIVEALSGSERDPGLDPAWI 818
>3eeg_A 2-isopropylmalate synthase; 11106D, beta barrel, PSI-II, structural
genomics, protein structure initiative; 2.78A {Cytophaga
hutchinsonii atcc 33406}
Length = 325
Score = 41.7 bits (99), Expect = 2e-04
Identities = 32/121 (26%), Positives = 59/121 (48%), Gaps = 13/121 (10%)
Query: 294 ISLGDTIGVGTPGTVVPMLEAVMAVVP-VEK--LAVHLHDTYGQSLPNILISLQMGISTV 350
+++ DT G P ++ +M V ++K L+ H H+ G + N L +LQ G V
Sbjct: 168 VNIPDTTGYMLPWQYGERIKYLMDNVSNIDKAILSAHCHNDLGLATANSLAALQNGARQV 227
Query: 351 DCSVAGLGGCPYAKGASGNVATEDVVYML----SGLGVETNVDLRKLMLAGDFINKHLGR 406
+C++ G+G +GN A E+VV + LG+ET ++ +KL+ ++ +
Sbjct: 228 ECTINGIG------ERAGNTALEEVVMAMECHKETLGLETGINHKKLVPISHLVSTLMRM 281
Query: 407 P 407
Sbjct: 282 Q 282
>3rmj_A 2-isopropylmalate synthase; LEUA, truncation, neisseria MENI TIM
barrel, catalytic domain, dimer, leucine biosynthesis,
ketoisovalerate; 1.95A {Neisseria meningitidis}
Length = 370
Score = 41.4 bits (98), Expect = 3e-04
Identities = 30/108 (27%), Positives = 52/108 (48%), Gaps = 13/108 (12%)
Query: 294 ISLGDTIGVGTPGTVVPMLEAVMAVVP-VEK--LAVHLHDTYGQSLPNILISLQMGISTV 350
I++ DT+G P ++A P K + H H+ G ++ N L +L+ G V
Sbjct: 174 INIPDTVGYSIPYKTEEFFRELIAKTPNGGKVVWSAHCHNDLGLAVANSLAALKGGARQV 233
Query: 351 DCSVAGLGGCPYAKGASGNVATEDVVYML----SGLGVETNVDLRKLM 394
+C+V GLG +GN + E++V L G+ET +D +++
Sbjct: 234 ECTVNGLG------ERAGNASVEEIVMALKVRHDLFGLETGIDTTQIV 275
>3ewb_X 2-isopropylmalate synthase; LEUA, structural genomics, unknown
function, amino-acid biosynthesis; 2.10A {Listeria
monocytogenes str}
Length = 293
Score = 39.8 bits (94), Expect = 9e-04
Identities = 26/108 (24%), Positives = 46/108 (42%), Gaps = 13/108 (12%)
Query: 294 ISLGDTIGVGTPGTVVPMLEAVMAVVP-VEK--LAVHLHDTYGQSLPNILISLQMGISTV 350
I++ DT+G P + + + + + A H HD G + N L +++ G V
Sbjct: 167 INIPDTVGYTNPTEFGQLFQDLRREIKQFDDIIFASHCHDDLGMATANALAAIENGARRV 226
Query: 351 DCSVAGLGGCPYAKGASGNVATEDVVYML----SGLGVETNVDLRKLM 394
+ ++ G+G +GN A E+V L ETN+ L +
Sbjct: 227 EGTINGIG------ERAGNTALEEVAVALHIRKDFYQAETNIVLNQFK 268
>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 = 33.6 bits (77), Expect = 0.14
Identities = 20/104 (19%), Positives = 40/104 (38%), Gaps = 9/104 (8%)
Query: 294 ISLGDTIGVGTPGTVVPMLEAVMAVVP-VEK--LAVHLHDTYGQSLPNILISLQMGISTV 350
+L T+ + TP +E + + E L++H H+ G ++ + G +
Sbjct: 249 FNLPATVEMTTPNVYADSIEWMSRNLANRESVILSLHPHNDRGTAVAAAELGFAAGADRI 308
Query: 351 DCSVAGLGGCPYAKGASGNVATEDVVYMLSGLGVETNVDLRKLM 394
+ + G G +GNV + L GV+ +D +
Sbjct: 309 EGCLFGNGE------RTGNVCLVTLGLNLFSRGVDPQIDFSNID 346
>2yvq_A Carbamoyl-phosphate synthase; conserved hypothetical protein,
structural genomics, NPPSFA; 1.98A {Homo sapiens}
Length = 143
Score = 31.3 bits (72), Expect = 0.21
Identities = 16/59 (27%), Positives = 24/59 (40%), Gaps = 11/59 (18%)
Query: 282 VAKELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNIL 340
VA++LH+ G F++ T T L A VP +A + SL +I
Sbjct: 42 VAEQLHNEG-FKL-------FATEATSD-WLNA--NNVPATPVAWPSQEGQNPSLSSIR 89
>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 = 30.3 bits (67), Expect = 0.56
Identities = 9/52 (17%), Positives = 18/52 (34%), Gaps = 24/52 (46%)
Query: 187 EAVRDLEGARLPVLTPNLKGFEAAIAAGAKEVAIFASASEAFSKSNINCSIE 238
+A++ L+ A L + + SA A + I ++E
Sbjct: 20 QALKKLQ-ASLKLYADD-------------------SAP-ALA---IKATME 47
Score = 29.1 bits (64), Expect = 1.4
Identities = 11/48 (22%), Positives = 16/48 (33%), Gaps = 19/48 (39%)
Query: 141 EKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLA-DARDVME 187
EK +++L +S L + P LA A ME
Sbjct: 18 EKQA---------LKKLQAS-L------KLYADDSAPALAIKA--TME 47
>1wxx_A TT1595, hypothetical protein TTHA1280; thermus thermophillus,
methyltransferase, adoMet, structural genomics; 1.80A
{Thermus thermophilus} SCOP: b.122.1.9 c.66.1.51 PDB:
1wxw_A 2cww_A*
Length = 382
Score = 30.4 bits (69), Expect = 1.2
Identities = 14/57 (24%), Positives = 24/57 (42%)
Query: 181 DARDVMEAVRDLEGARLPVLTPNLKGFEAAIAAGAKEVAIFASASEAFSKSNINCSI 237
D R+ + G R + GF +A G +EV S++EA ++ N +
Sbjct: 197 DQRENRLYMERFRGERALDVFSYAGGFALHLALGFREVVAVDSSAEALRRAEENARL 253
>3oa3_A Aldolase; structural genomics, seattle structural genomics center
for infectious disease, ssgcid, pathogenic fungus; 1.60A
{Coccidioides immitis}
Length = 288
Score = 29.2 bits (66), Expect = 2.4
Identities = 15/60 (25%), Positives = 24/60 (40%), Gaps = 21/60 (35%)
Query: 171 VSPKWVPQLADARDVMEAVRDLEGARLPVLT----------PNLKGFEA--AIAAGAKEV 218
V P +V + AV+ L+G ++ V + K EA A+ GA E+
Sbjct: 93 VRPDYVSR---------AVQYLQGTQVGVTCVIGFHEGTYSTDQKVSEAKRAMQNGASEL 143
>3r12_A Deoxyribose-phosphate aldolase; TIM beta/alpha-barrel, structural
genomics, joint center for structural genomics, JCSG;
HET: MSE CIT; 1.75A {Thermotoga maritima} PDB: 1o0y_A*
3r13_A*
Length = 260
Score = 29.2 bits (66), Expect = 2.7
Identities = 15/64 (23%), Positives = 22/64 (34%), Gaps = 21/64 (32%)
Query: 167 ATSFVSPKWVPQLADARDVMEAVRDLEGARLPV----------LTPNLKGFEA--AIAAG 214
V+P +V A +LEG + V K EA A+ +G
Sbjct: 74 HGVCVNPCYVKL---------AREELEGTDVKVVTVVGFPLGANETRTKAHEAIFAVESG 124
Query: 215 AKEV 218
A E+
Sbjct: 125 ADEI 128
>1ub3_A Aldolase protein; schiff base, deoxyribose phosphate,
carbinolamine, structural genomics, riken structural
genomics/proteomics initiative; HET: HPD; 1.40A {Thermus
thermophilus} SCOP: c.1.10.1 PDB: 1j2w_A*
Length = 220
Score = 28.3 bits (64), Expect = 4.4
Identities = 12/64 (18%), Positives = 16/64 (25%), Gaps = 21/64 (32%)
Query: 167 ATSFVSPKWVPQLADARDVMEAVRDLEGARLPV----------LTPNLKGFEA--AIAAG 214
+ P +V A + +K EA A A G
Sbjct: 34 YGLCIPPSYVAW---------VRARYPHAPFRLVTVVGFPLGYQEKEVKALEAALACARG 84
Query: 215 AKEV 218
A EV
Sbjct: 85 ADEV 88
>2hs5_A Putative transcriptional regulator GNTR; APC6050, rhodococcus SP.
RH structural genomics, PSI-2, protein structure
initiative; 2.20A {Rhodococcus SP} SCOP: a.4.5.6
a.78.1.1
Length = 239
Score = 28.1 bits (63), Expect = 4.6
Identities = 16/87 (18%), Positives = 26/87 (29%), Gaps = 13/87 (14%)
Query: 152 ELIRRLVSSGLPVVEAT--SFVSPKWVPQLADARDVMEAVRDLEGARLPVLTPN---LKG 206
E + L+ L E FV P D ++ R +E A + P L
Sbjct: 70 EAFQILIEDRLVAHELNRGVFVRV---PTAEDITELYICRRVVECAGVNGFDPATGDLSR 126
Query: 207 FEAAI-----AAGAKEVAIFASASEAF 228
A+ ++ +A F
Sbjct: 127 VAEALDLADERYAVEDWTGVGTADIHF 153
>3ngj_A Deoxyribose-phosphate aldolase; lyase, structural genomics,
structural genomics center for infectious disease,
ssgcid; 1.70A {Entamoeba histolytica}
Length = 239
Score = 28.0 bits (63), Expect = 4.9
Identities = 16/64 (25%), Positives = 24/64 (37%), Gaps = 21/64 (32%)
Query: 167 ATSFVSPKWVPQLADARDVMEAVRDLEGARLPV----------LTPNLKGFEA--AIAAG 214
A+ V+P WVP L+G + V +K +E A+ G
Sbjct: 58 ASVCVNPTWVPL---------CAELLKGTGVKVCTVIGFPLGATPSEVKAYETKVAVEQG 108
Query: 215 AKEV 218
A+EV
Sbjct: 109 AEEV 112
>3l6d_A Putative oxidoreductase; structural genomics, protein structure
initiative, oxidoredu PSI-2; HET: MSE; 1.90A
{Pseudomonas putida}
Length = 306
Score = 28.0 bits (63), Expect = 5.6
Identities = 6/37 (16%), Positives = 12/37 (32%), Gaps = 1/37 (2%)
Query: 178 QLADARDVMEAVRDLEGARLPVLTPNLKGFEAAIAAG 214
+ +++ G PV + + A A G
Sbjct: 245 HADAFAHIAQSLHAQ-GVWTPVFDAVCQVVQRAAAMG 280
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR;
fatty acid synthase, acyl-carrier-protein, beta-ketoacyl
RED beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 1688
Score = 28.3 bits (63), Expect = 6.3
Identities = 16/74 (21%), Positives = 28/74 (37%), Gaps = 21/74 (28%)
Query: 142 KNTVPTGVK-----VELIRRLVSSGLPVVEATSFVSPKWVPQLADARDVMEAVRDL---- 192
K + TG E+++ L+ G VV TS S + V + + +
Sbjct: 477 KYVLITGAGKGSIGAEVLQGLLQGGAKVVVTTSRFS----------KQVTDYYQSIYAKY 526
Query: 193 --EGARLPVLTPNL 204
+G+ L V+ N
Sbjct: 527 GAKGSTLIVVPFNQ 540
>1nw9_B Caspase 9, apoptosis-related cysteine protease; XIAP, caspase
inhibition, caspase activation, dimerization; 2.40A
{Homo sapiens} SCOP: c.17.1.1 PDB: 1jxq_A* 2ar9_A
Length = 277
Score = 27.8 bits (61), Expect = 6.4
Identities = 12/63 (19%), Positives = 19/63 (30%), Gaps = 7/63 (11%)
Query: 74 RDMSHGDSFSRRTVSLGRNHKMFGSACDIYNSNCNDKDIRDITNKF-------LKGIPRF 126
+D D +S G +Y ++ + I N F L G P+
Sbjct: 83 QDHGALDCCVVVILSHGCQASHLQFPGAVYGTDGCPVSVEKIVNIFNGTSCPSLGGKPKL 142
Query: 127 VKI 129
I
Sbjct: 143 FFI 145
>2odr_C Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 701
Score = 28.0 bits (62), Expect = 7.4
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 208 EAAIAAGAKEVAIFASASEAFSKSNINCSIEDSLVRYRAVAHAAKVLSIPVRGYVSCVVG 267
E A + E + S S+IN I+D ++ + KV I VRG V V
Sbjct: 499 EEAFVSNTTEFKVKVPIVR--SLSDINLKIDDIALKQ--IMSKNKV--IDVRGPVFLNVE 552
Query: 268 CPVE 271
+E
Sbjct: 553 VKIE 556
>1n7k_A Deoxyribose-phosphate aldolase; A.pernix, tetramer, alpha-beta TIM
barrel, riken S genomics/proteomics initiative, RSGI,
structural genomics,; 2.00A {Aeropyrum pernix} SCOP:
c.1.10.1
Length = 234
Score = 27.2 bits (61), Expect = 8.3
Identities = 9/64 (14%), Positives = 19/64 (29%), Gaps = 21/64 (32%)
Query: 167 ATSFVSPKWVPQLADARDVMEAVRDLEGARLPV----------LTPNLKGFEA--AIAAG 214
+ ++P + + E + + +K EA + AG
Sbjct: 51 RCAVLTPVYTVK---------ISGLAEKLGVKLCSVIGFPLGQAPLEVKLVEAQTVLEAG 101
Query: 215 AKEV 218
A E+
Sbjct: 102 ATEL 105
>3e39_A Putative nitroreductase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: MSE FMN PGE; 1.70A {Desulfovibrio
desulfuricans subsp}
Length = 178
Score = 26.8 bits (60), Expect = 9.8
Identities = 2/31 (6%), Positives = 6/31 (19%), Gaps = 8/31 (25%)
Query: 37 MGMGSCWIEGSSCSTSNSYDEDYDEYTREAF 67
+ +G+ W+
Sbjct: 115 LQLGAVWL--------GEIINQAATLLPALA 137
>2odr_D Phosphoseryl-tRNA synthetase; phosphoserine tRNA synthetase class
II, ligase; 3.23A {Methanococcus maripaludis}
Length = 685
Score = 27.6 bits (61), Expect = 10.0
Identities = 18/64 (28%), Positives = 26/64 (40%), Gaps = 6/64 (9%)
Query: 208 EAAIAAGAKEVAIFASASEAFSKSNINCSIEDSLVRYRAVAHAAKVLSIPVRGYVSCVVG 267
E A + E + S S+IN I+D ++ + KV I VRG V V
Sbjct: 499 EEAFVSNTTEFKVKVPIVR--SLSDINLKIDDIALKQ--IMSKNKV--IDVRGPVFLNVE 552
Query: 268 CPVE 271
+E
Sbjct: 553 VKIE 556
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 0.394
Gapped
Lambda K H
0.267 0.0756 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,653,593
Number of extensions: 425060
Number of successful extensions: 1280
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1257
Number of HSP's successfully gapped: 55
Length of query: 426
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 330
Effective length of database: 4,021,377
Effective search space: 1327054410
Effective search space used: 1327054410
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 (26.5 bits)