RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 021609
(310 letters)
>2zbt_A Pyridoxal biosynthesis lyase PDXS; pyridoxine biosynthesis,
structural genomics, NPPSFA; 1.65A {Thermus
thermophilus} PDB: 2iss_A*
Length = 297
Score = 385 bits (990), Expect = e-135
Identities = 205/293 (69%), Positives = 245/293 (83%), Gaps = 1/293 (0%)
Query: 17 TETKKSPFSVKVGLAQMLRGGVIMDVVTPEQARVAEEAGACAVMALERVPADIRSQGGVA 76
+K F +K G A+M +GGVIMDV TPEQA +AEEAGA AVMALERVPADIR+QGGVA
Sbjct: 3 GGMEKGTFQIKTGFAEMFKGGVIMDVTTPEQAVIAEEAGAVAVMALERVPADIRAQGGVA 62
Query: 77 RMSDPQLIKEIKQSVTIPVMAKARIGHFVEAQILEAIGIDYVDESEVLTPADEENHINKH 136
RMSDP++IKEI +V+IPVMAK RIGHFVEA ILEAIG+D++DESEVLTPADEE+HI+K
Sbjct: 63 RMSDPKIIKEIMAAVSIPVMAKVRIGHFVEAMILEAIGVDFIDESEVLTPADEEHHIDKW 122
Query: 137 NFRIPFVCGCRNLGEALRRIREGAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRVLRNMDD 196
F++PFVCG RNLGEALRRI EGAAMIRTKGEAGTGN++EAVRH R++ +IR ++++ +
Sbjct: 123 KFKVPFVCGARNLGEALRRIAEGAAMIRTKGEAGTGNVVEAVRHARTMWKEIRYVQSLRE 182
Query: 197 DEVFTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVF 256
DE+ +AK+I AP++LV GRLPVV+FAAGG+ATPADAA+MM LG DGVFVGSG+F
Sbjct: 183 DELMAYAKEIGAPFELVKWVHDHGRLPVVNFAAGGIATPADAALMMHLGMDGVFVGSGIF 242
Query: 257 KSGDPVKRAQAIVRAVTHYSDPEVLAEVSCGLGEAMVGLNLSD-HKVERFASR 308
KSGDP KRA+AIVRAV HY+DPEVLAEVS LGE MVG+NL + ER A R
Sbjct: 243 KSGDPRKRARAIVRAVAHYNDPEVLAEVSEDLGEPMVGINLDQLKEEERLAKR 295
>4adt_A Pyridoxine biosynthetic enzyme PDX1 homologue, PU; transferase,
pyridoxal 5-phosphate biosynthesis; 2.42A {Plasmodium
berghei} PDB: 4adu_A* 4ads_A
Length = 297
Score = 385 bits (989), Expect = e-135
Identities = 170/293 (58%), Positives = 223/293 (76%), Gaps = 1/293 (0%)
Query: 17 TETKKSPFSVKVGLAQMLRGGVIMDVVTPEQARVAEEAGACAVMALERVPADIRSQGGVA 76
+K G +ML+GGVIMDV EQA++AE+AGA VM LE +P+++R+ GVA
Sbjct: 3 DYADNDSILLKHGWCEMLKGGVIMDVKNVEQAKIAEKAGAIGVMILENIPSELRNTDGVA 62
Query: 77 RMSDPQLIKEIKQSVTIPVMAKARIGHFVEAQILEAIGIDYVDESEVLTPADEENHINKH 136
R DP I+EI++ ++I V+AK RIGHFVEAQILE + +D +DESEVLT ADE NHINKH
Sbjct: 63 RSVDPLKIEEIRKCISINVLAKVRIGHFVEAQILEELKVDMLDESEVLTMADEYNHINKH 122
Query: 137 NFRIPFVCGCRNLGEALRRIREGAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRVLRNMDD 196
F+ PFVCGC NLGEALRRI EGA+MIRTKGEAGTGNIIEA++H+R+V +I+ L ++D+
Sbjct: 123 KFKTPFVCGCTNLGEALRRISEGASMIRTKGEAGTGNIIEAIKHIRTVNNEIKYLCSLDE 182
Query: 197 DEVFTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVF 256
EV+ FAKK+ AP DL++ T++L RLPVV+FAAGG+ATPADAAM MQLG DGVFVGSG+F
Sbjct: 183 SEVYNFAKKLRAPIDLILLTRKLKRLPVVNFAAGGIATPADAAMCMQLGMDGVFVGSGIF 242
Query: 257 KSGDPVKRAQAIVRAVTHYSDPEVLAEVSCGLGEAMVGLNLSDHKV-ERFASR 308
+S +P K A +IV AV+++++P++L VS GLG+AM G +K +
Sbjct: 243 ESENPQKMASSIVMAVSNFNNPKILLNVSLGLGKAMHGNTKVSNKWKNKSEED 295
>3o07_A Pyridoxine biosynthesis protein SNZ1; (beta/alpha)8-barrel,
pyridoxal 5-phosphate synthase, PLP G3 SNO1,
biosynthetic protein; HET: 1GP; 1.80A {Saccharomyces
cerevisiae} PDB: 3o06_A 3o05_A* 3fem_A
Length = 291
Score = 379 bits (973), Expect = e-133
Identities = 167/288 (57%), Positives = 217/288 (75%), Gaps = 5/288 (1%)
Query: 26 VKVGLAQMLRGGVIMDVVTPEQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIK 85
ML+GGVIMDVVTPEQA++AE++GACAVMALE +PAD+R G V RMSDP++IK
Sbjct: 2 HHHHHHGMLKGGVIMDVVTPEQAKIAEKSGACAVMALESIPADMRKSGKVCRMSDPKMIK 61
Query: 86 EIKQSVTIPVMAKARIGHFVEAQILEAIGIDYVDESEVLTPADEENHINKHNFRIPFVCG 145
+I SV+IPVMAK RIGHFVEAQI+EA+ +DY+DESEVLTPAD +HI K F++PFVCG
Sbjct: 62 DIMNSVSIPVMAKVRIGHFVEAQIIEALEVDYIDESEVLTPADWTHHIEKDKFKVPFVCG 121
Query: 146 CRNLGEALRRIREGAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRVLRNMDD-DEVFTFAK 204
++LGEALRRI EGAAMIRTKGEAGTG++ EAV+H+R + +I+ + + D++ A+
Sbjct: 122 AKDLGEALRRINEGAAMIRTKGEAGTGDVSEAVKHIRRITEEIKACQQLKSEDDIAKVAE 181
Query: 205 KIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKR 264
++ P L+ + G+LPVV+FAAGGVATPADAA++MQLGCDGVFVGSG+FKS +PV+
Sbjct: 182 EMRVPVSLLKDVLEKGKLPVVNFAAGGVATPADAALLMQLGCDGVFVGSGIFKSSNPVRL 241
Query: 265 AQAIVRAVTHYSDPEVLAEVSCGLGEAMVGLNLSD----HKVERFASR 308
A A+V A TH+ +P L EVS LGE M G+++ R +
Sbjct: 242 ATAVVEATTHFDNPSKLLEVSSDLGELMGGVSIESISHASNGVRLSEI 289
>2nv1_A Pyridoxal biosynthesis lyase PDXS; (beta/alpha)8-barrel, synthase;
2.08A {Bacillus subtilis} PDB: 2nv2_A* 1znn_A
Length = 305
Score = 376 bits (966), Expect = e-132
Identities = 182/293 (62%), Positives = 237/293 (80%), Gaps = 1/293 (0%)
Query: 17 TETKKSPFSVKVGLAQMLRGGVIMDVVTPEQARVAEEAGACAVMALERVPADIRSQGGVA 76
+ + VK G+A+M +GGVIMDV+ EQA++AEEAGA AVMALERVPADIR+ GGVA
Sbjct: 3 SMAQTGTERVKRGMAEMQKGGVIMDVINAEQAKIAEEAGAVAVMALERVPADIRAAGGVA 62
Query: 77 RMSDPQLIKEIKQSVTIPVMAKARIGHFVEAQILEAIGIDYVDESEVLTPADEENHINKH 136
RM+DP +++E+ +V+IPVMAKARIGH VEA++LEA+G+DY+DESEVLTPADEE H+NK+
Sbjct: 63 RMADPTIVEEVMNAVSIPVMAKARIGHIVEARVLEAMGVDYIDESEVLTPADEEFHLNKN 122
Query: 137 NFRIPFVCGCRNLGEALRRIREGAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRVLRNMDD 196
+ +PFVCGCR+LGEA RRI EGA+M+RTKGE GTGNI+EAVRH+R V +R + M +
Sbjct: 123 EYTVPFVCGCRDLGEATRRIAEGASMLRTKGEPGTGNIVEAVRHMRKVNAQVRKVVAMSE 182
Query: 197 DEVFTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVF 256
DE+ T AK + APY+L++Q K+ G+LPVV+FAAGGVATPADAA+MMQLG DGVFVGSG+F
Sbjct: 183 DELMTEAKNLGAPYELLLQIKKDGKLPVVNFAAGGVATPADAALMMQLGADGVFVGSGIF 242
Query: 257 KSGDPVKRAQAIVRAVTHYSDPEVLAEVSCGLGEAMVGLNLSD-HKVERFASR 308
KS +P K A+AIV A TH++D +++AE+S LG AM G+ +S+ +R R
Sbjct: 243 KSDNPAKFAKAIVEATTHFTDYKLIAELSKELGTAMKGIEISNLLPEQRMQER 295
>2yzr_A Pyridoxal biosynthesis lyase PDXS; redox protein, pyridoxal
phosphate, structural genomi NPPSFA; 2.30A
{Methanocaldococcus jannaschii}
Length = 330
Score = 360 bits (924), Expect = e-125
Identities = 183/329 (55%), Positives = 229/329 (69%), Gaps = 38/329 (11%)
Query: 20 KKSPFSVKVGLAQMLRGGVIMDVVTPEQARVAEEAGACAVMALERVPADIRSQGGVARMS 79
KK +K G A+M++ GV+MDV EQA++AEEAGA AVMALERVPADIR+ GGVARMS
Sbjct: 2 KKGTDLLKKGFAKMVKHGVVMDVTNVEQAQIAEEAGAVAVMALERVPADIRAAGGVARMS 61
Query: 80 DPQLIKEIKQSVTIPVMAKARIGHFVEAQILEAIGIDYVDESEVLTPADEENHINKHNFR 139
DP LI+EI +V+IPVMAK RIGH EA +LEAIG+D +DESEVLT AD HI K F
Sbjct: 62 DPALIEEIMDAVSIPVMAKCRIGHTTEALVLEAIGVDMIDESEVLTQADPFFHIYKKKFN 121
Query: 140 IPFVCGCRNLGEALRRIREGAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRVLRNMDDDEV 199
+PFVCG RNLGEA+RRI EGAAMIRTKGEAGTGNI+EAVRH+R + I L+ M D+EV
Sbjct: 122 VPFVCGARNLGEAVRRIWEGAAMIRTKGEAGTGNIVEAVRHMRLMNEAIAQLQRMTDEEV 181
Query: 200 FTFAK-------------------------------------KIAAPYDLVMQTKQLGRL 222
+ AK I Y+++++ K+LGRL
Sbjct: 182 YGVAKFYANRYAELAKTVREGMGLPATVLENEPIYEGFTLAEIIDGLYEVLLEVKKLGRL 241
Query: 223 PVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTHYSDPEVLA 282
PVV+FAAGGVATPADAA+MMQLG DGVFVGSG+FKS +P++RA+AIV A +Y P+++A
Sbjct: 242 PVVNFAAGGVATPADAALMMQLGSDGVFVGSGIFKSENPLERARAIVEATYNYDKPDIVA 301
Query: 283 EVSCGLGEAMVGLNLSD-HKVERFASRSE 310
EVS LGEAM G++++ + E+ R +
Sbjct: 302 EVSKNLGEAMKGIDITQISEAEKMQYRGD 330
>1yxy_A Putative N-acetylmannosamine-6-phosphate 2-epimer; structural
genomics, epimerase, PSI, structure initiative; 1.60A
{Streptococcus pyogenes} SCOP: c.1.2.5
Length = 234
Score = 85.4 bits (211), Expect = 7e-20
Identities = 43/265 (16%), Positives = 85/265 (32%), Gaps = 57/265 (21%)
Query: 27 KVGLAQMLRGGVIMDV-VTPEQARVAEEAGACAVMALERVPADIRSQGGVA--RMSDPQL 83
K L + L+GG+I+ P + +E G +MA + G R + +
Sbjct: 7 KEKLMEQLKGGIIVSCQALPGEPLYSETGGIMPLMAKAAQ------EAGAVGIRANSVRD 60
Query: 84 IKEIKQSVTIPVMAKARIGH----------FVEAQILEAIGIDYV-------DESEVLTP 126
IKEI+ +P++ + + E L A+ I + D + L
Sbjct: 61 IKEIQAITDLPIIGIIKKDYPPQEPFITATMTEVDQLAALNIAVIAMDCTKRDRHDGLDI 120
Query: 127 ADEENHINKHNFRIPFVCGCRNLGEALRRIREGAAMIRTKGEAGTGNIIEAVRHVRSVMG 186
A + + + E L + G + T T
Sbjct: 121 ASFIRQVKEKYPNQLLMADISTFDEGLVAHQAGIDFVGTTLSGYTPYS------------ 168
Query: 187 DIRVLRNMDDDEVFTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGC 246
++ L+ + G + V+ A G + +P +A + LG
Sbjct: 169 ----------------RQEAGPDVALIEALCKAG-IAVI--AEGKIHSPEEAKKINDLGV 209
Query: 247 DGVFVGSGVFKSGDPVKRAQAIVRA 271
G+ VG + + + +R +++
Sbjct: 210 AGIVVGGAITRPKEIAERFIEALKS 234
>3igs_A N-acetylmannosamine-6-phosphate 2-epimerase 2; energy metabolism,
sugars, csgid, carbohydrate metabolism, isomerase; HET:
MSE 16G; 1.50A {Salmonella enterica subsp}
Length = 232
Score = 77.0 bits (189), Expect = 9e-17
Identities = 43/264 (16%), Positives = 80/264 (30%), Gaps = 57/264 (21%)
Query: 27 KVGLAQMLRGGVIMDVVTPEQARVAE---EAGACAVMALERVPADIRSQGGVARMSDPQL 83
++ GG+I+ Q + A MAL A ++ R+
Sbjct: 9 QLDKNIAASGGLIVSC----QPVPGSPLDKPEIVAAMAL----AAEQAGAVAVRIEGIDN 60
Query: 84 IKEIKQSVTIPVMAKARIGH----------FVEAQILEAIGIDYV--DESEVLTPADEEN 131
++ + V++P++ + + L G + D + P E
Sbjct: 61 LRMTRSLVSVPIIGIIKRDLDESPVRITPFLDDVDALAQAGAAIIAVDGTARQRPVAVEA 120
Query: 132 HINK-HNFRIPFVCGCRNLGEALRRIREGAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRV 190
+ + H+ + + C ++ + L R GA +I T T
Sbjct: 121 LLARIHHHHLLTMADCSSVDDGLACQRLGADIIGTTMSGYTTPDTPEE------------ 168
Query: 191 LRNMDDDEVFTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVF 250
LV G V+ A G +PA AA ++ G V
Sbjct: 169 -----------------PDLPLVKALHDAG-CRVI--AEGRYNSPALAAEAIRYGAWAVT 208
Query: 251 VGSGVFKSGDPVKR-AQAIVRAVT 273
VGS + + A+ +A +
Sbjct: 209 VGSAITRLEHICGWYNDALKKAAS 232
>3q58_A N-acetylmannosamine-6-phosphate 2-epimerase; TIM beta/alpha barrel,
ribulose-phosphate binding barrel, carbohydrate
metabolic process; HET: BTB; 1.80A {Salmonella enterica
subsp}
Length = 229
Score = 55.0 bits (132), Expect = 4e-09
Identities = 40/251 (15%), Positives = 79/251 (31%), Gaps = 50/251 (19%)
Query: 27 KVGLAQMLRGGVIMDVVTPEQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKE 86
++ + GG+I+ + + + A MA A + R+ + ++
Sbjct: 9 RLEQSVHENGGLIVSCQPVPGSPMDKPEIVAA-MAQ----AAASAGAVAVRIEGIENLRT 63
Query: 87 IKQSVTIPVMAKARIGH----------FVEAQILEAIGIDYV--DESEVLTPADEENHIN 134
++ +++P++ + + L G D + D S P D ++ +
Sbjct: 64 VRPHLSVPIIGIIKRDLTGSPVRITPYLQDVDALAQAGADIIAFDASFRSRPVDIDSLLT 123
Query: 135 KHNFRIPFVCG-CRNLGEALRRIREGAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRVLRN 193
+ C + E + ++G I T TG I
Sbjct: 124 RIRLHGLLAMADCSTVNEGISCHQKGIEFIGTTLSGYTGPI------------------- 164
Query: 194 MDDDEVFTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
+ +V Q G V+ A G TPA AA ++ G V VGS
Sbjct: 165 ----------TPVEPDLAMVTQLSHAG-CRVI--AEGRYNTPALAANAIEHGAWAVTVGS 211
Query: 254 GVFKSGDPVKR 264
+ + +
Sbjct: 212 AITRIEHICQW 222
>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 = 53.1 bits (127), Expect = 5e-08
Identities = 54/339 (15%), Positives = 101/339 (29%), Gaps = 108/339 (31%)
Query: 22 SPFSVK-VGLAQM--------------------LRG--GVIMDVVT---PEQARVAEEAG 55
P S +G+ Q+ L+G G +VT + E
Sbjct: 234 IPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFF 293
Query: 56 ACAVMALERVPADI--RSQGGVARMS-DPQLIKE-IKQSVTIPV-MAKARIGHFVEAQIL 110
A+ V I R S P ++++ ++ + +P M + + +
Sbjct: 294 VSVRKAIT-VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSIS-N--LTQEQV 349
Query: 111 EAIGIDYVDESEVLTPADEENHINKHNFRIPFV-CG----CRNLGEALRRIREGAAMIRT 165
+ DYV+++ PA ++ I+ N V G L LR+ + + + ++
Sbjct: 350 Q----DYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQS 405
Query: 166 KGEAGTGNIIEAVRH-VRSVMGDIRVLRNMDDDEVFTFAKKIAAPY-------------- 210
+ + R + R L +A+P+
Sbjct: 406 R-----------IPFSERKLKFSNRFLP-------------VASPFHSHLLVPASDLINK 441
Query: 211 DLVMQT-----KQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRA 265
DLV K + ++PV G ++ ++ D + PVK
Sbjct: 442 DLVKNNVSFNAKDI-QIPVYDTFDGSDLRVLSGSISERI-VDCIIR--------LPVKWE 491
Query: 266 QAIVRAVTHYSDPEVLAEVSCGLGEAMVGL-NLSDHKVE 303
TH D G G GL L+ +
Sbjct: 492 TTTQFKATHILD--------FGPG-GASGLGVLTHRNKD 521
Score = 41.6 bits (97), Expect = 3e-04
Identities = 27/164 (16%), Positives = 47/164 (28%), Gaps = 62/164 (37%)
Query: 185 MGDIRVLRNMDDDEVFTFAKKI---AAPY----------DLVMQ-TKQLGRLPVVHF-AA 229
MG MD + A+ + A + D+V+ L +HF
Sbjct: 1631 MG-------MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNL----TIHFGGE 1679
Query: 230 GGVATPAD-AAMMMQLGCDGVFVGSGVFKSGDPVKR----------------AQ-AIVRA 271
G + +AM+ + DG +FK + Q A+
Sbjct: 1680 KGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALT-- 1737
Query: 272 VTHYSDPEVLAE--------VSCG--LGE--AMVG----LNLSD 299
+ + E L G LGE A+ +++
Sbjct: 1738 LMEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIES 1781
>1y0e_A Putative N-acetylmannosamine-6-phosphate 2-epimer; mannac-6-P
epimerase, NANE, structural genomics, protein STR
initiative, PSI; 1.95A {Staphylococcus aureus subsp}
SCOP: c.1.2.5
Length = 223
Score = 50.3 bits (120), Expect = 1e-07
Identities = 37/230 (16%), Positives = 64/230 (27%), Gaps = 63/230 (27%)
Query: 43 VTPEQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPVMAKARIG 102
+ + A A E GA + R + + I IK++V +PV+ +
Sbjct: 24 IMSKMALAAYEGGAVGI-----------------RANTKEDILAIKETVDLPVIGIVKRD 66
Query: 103 H----------FVEAQILEAIGIDYV------DESEVLTPADEENHINKHNFRIPFVCGC 146
+ E L + + + T + ++I H + +
Sbjct: 67 YDHSDVFITATSKEVDELIESQCEVIALDATLQQRPKETLDELVSYIRTHAPNVEIMADI 126
Query: 147 RNLGEALRRIREGAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRVLRNMDDDEVFTFAKKI 206
+ EA R G I T T T + +
Sbjct: 127 ATVEEAKNAARLGFDYIGTTLHGYTSY---------------------------TQGQLL 159
Query: 207 AAP-YDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGV 255
+ + Q V+ A G V TP +M LG VG +
Sbjct: 160 YQNDFQFLKDVLQSVDAKVI--AEGNVITPDMYKRVMDLGVHCSVVGGAI 207
Score = 36.8 bits (85), Expect = 0.005
Identities = 17/81 (20%), Positives = 36/81 (44%), Gaps = 1/81 (1%)
Query: 38 VIMDVVTPEQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPVMA 97
++ D+ T E+A+ A G + +QG + +D Q +K++ QSV V+A
Sbjct: 122 IMADIATVEEAKNAARLGFDYIGTTLHGYTSY-TQGQLLYQNDFQFLKDVLQSVDAKVIA 180
Query: 98 KARIGHFVEAQILEAIGIDYV 118
+ + + + +G+
Sbjct: 181 EGNVITPDMYKRVMDLGVHCS 201
>1xm3_A Thiazole biosynthesis protein THIG; structural genomics, protein
structure initiative, PSI, NESG, northeast structural
genomics consortium; 1.80A {Bacillus subtilis} SCOP:
c.1.31.1 PDB: 1tyg_A
Length = 264
Score = 50.3 bits (121), Expect = 2e-07
Identities = 23/52 (44%), Positives = 34/52 (65%), Gaps = 2/52 (3%)
Query: 221 RLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAV 272
++PV+ A G+ +P DAA M+LG DGV + + V + DPVK A+A+ AV
Sbjct: 178 KVPVIVDA--GIGSPKDAAYAMELGADGVLLNTAVSGADDPVKMARAMKLAV 227
Score = 29.5 bits (67), Expect = 1.3
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 6/58 (10%)
Query: 45 PEQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPVMAKARIG 102
AR EE G A+M + I S G+ +P + I + +PV+ A IG
Sbjct: 137 VVLARKLEELGVHAIMPG---ASPIGSGQGIL---NPLNLSFIIEQAKVPVIVDAGIG 188
>1wv2_A Thiazole moeity, thiazole biosynthesis protein THIG; structural
genomics, protein structure initiative, PSI; 2.90A
{Pseudomonas aeruginosa} SCOP: c.1.31.1
Length = 265
Score = 50.3 bits (121), Expect = 2e-07
Identities = 20/52 (38%), Positives = 34/52 (65%), Gaps = 2/52 (3%)
Query: 221 RLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAV 272
++PV+ A GV T +DAA+ M+LGC+ V + + + + DPV A+A+ A+
Sbjct: 187 KVPVLVDA--GVGTASDAAIAMELGCEAVLMNTAIAHAKDPVMMAEAMKHAI 236
Score = 29.9 bits (68), Expect = 0.91
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 6/58 (10%)
Query: 45 PEQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPVMAKARIG 102
P AR E G AVM L I S G+ +P ++ I + +PV+ A +G
Sbjct: 146 PIIARQLAEIGCIAVMPL---AGLIGSGLGIC---NPYNLRIILEEAKVPVLVDAGVG 197
>2htm_A Thiazole biosynthesis protein THIG; thiamin biosynthesis, THIG,
thermus thermophilus HB8, structural genomics, NPPSFA;
2.30A {Thermus thermophilus}
Length = 268
Score = 50.3 bits (121), Expect = 2e-07
Identities = 21/68 (30%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 206 IAAPYDLVMQTKQLG-RLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKR 264
+ L + ++ PVV A G+ P+ AA +M+LG D V V + + ++ DP
Sbjct: 162 VRTRALLELFAREKASLPPVVVDA--GLGLPSHAAEVMELGLDAVLVNTAIAEAQDPPAM 219
Query: 265 AQAIVRAV 272
A+A AV
Sbjct: 220 AEAFRLAV 227
>1hg3_A Triosephosphate isomerase; thermostability, tetrameric; 2.7A
{Pyrococcus woesei} SCOP: c.1.1.1
Length = 225
Score = 40.7 bits (96), Expect = 2e-04
Identities = 15/43 (34%), Positives = 23/43 (53%)
Query: 230 GGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAV 272
G++T D ++LG GV + SGV K+ DP K +V +
Sbjct: 183 AGISTGEDVKKAIELGTVGVLLASGVTKAKDPEKAIWDLVSGI 225
>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 = 39.8 bits (94), Expect = 6e-04
Identities = 19/74 (25%), Positives = 31/74 (41%), Gaps = 17/74 (22%)
Query: 211 DLVMQTKQLGRLPVVHFAAG-GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIV 269
L+ + K++ PV A G G++ P + Q G DGV +GS A+V
Sbjct: 191 SLIQEVKKVTNKPV---AVGFGISKPEHVKQIAQWGADGVIIGS-------------AMV 234
Query: 270 RAVTHYSDPEVLAE 283
R + + P+
Sbjct: 235 RQLGEAASPKQGLR 248
>3exr_A RMPD (hexulose-6-phosphate synthase); beta barrel, lyase; 1.70A
{Streptococcus mutans} PDB: 3exs_A* 3ext_A
Length = 221
Score = 39.2 bits (91), Expect = 6e-04
Identities = 9/59 (15%), Positives = 21/59 (35%), Gaps = 1/59 (1%)
Query: 217 KQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTHY 275
K+L + GG+ + + + G G+ ++ +P A+A +
Sbjct: 162 KKLIEMGFRVSVTGGL-SVDTLKLFEGVDVFTFIAGRGITEAKNPAGAARAFKDEIKRI 219
>2h6r_A Triosephosphate isomerase; beta-alpha barrel; 2.30A
{Methanocaldococcus jannaschii}
Length = 219
Score = 38.7 bits (91), Expect = 9e-04
Identities = 10/44 (22%), Positives = 23/44 (52%)
Query: 229 AGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAV 272
G++ D + LG +GV + SGV K+ + + + +++ +
Sbjct: 176 GAGISKGEDVKAALDLGAEGVLLASGVVKAKNVEEAIRELIKFI 219
>1w0m_A TIM, triosephosphate isomerase; glycolysis, gluconeogenesis; 2.5A
{Thermoproteus tenax} SCOP: c.1.1.1
Length = 226
Score = 38.8 bits (91), Expect = 0.001
Identities = 11/47 (23%), Positives = 22/47 (46%)
Query: 229 AGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTHY 275
G+ + D A ++LG GV + S K+ DP + + + ++
Sbjct: 179 GAGIESGDDVAAALRLGTRGVLLASAAVKAKDPYAKIVELAKPLSEL 225
>1yad_A Regulatory protein TENI; TIM barrel, transcription; 2.10A {Bacillus
subtilis} PDB: 3qh2_A*
Length = 221
Score = 38.8 bits (91), Expect = 0.001
Identities = 24/71 (33%), Positives = 36/71 (50%), Gaps = 5/71 (7%)
Query: 204 KKIAAP--YDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDP 261
KK L+ KQ +PV+ A GG+ TP + Q G DG+ V SG+F S +P
Sbjct: 145 KKGLEGRGVSLLSDIKQRISIPVI--AIGGM-TPDRLRDVKQAGADGIAVMSGIFSSAEP 201
Query: 262 VKRAQAIVRAV 272
++ A+ R +
Sbjct: 202 LEAARRYSRKL 212
>2tps_A Protein (thiamin phosphate synthase); thiamin biosynthesis, TIM
barrel; HET: TPS; 1.25A {Bacillus subtilis} SCOP:
c.1.3.1 PDB: 1g4t_A* 3o15_A* 1g6c_A* 1g4e_A* 1g69_A*
3o16_A 1g4s_A* 1g4p_A* 1g67_A*
Length = 227
Score = 38.4 bits (90), Expect = 0.001
Identities = 18/60 (30%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 216 TKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTHY 275
+Q +P+V GG+ T +AA ++Q G DGV + S + ++ DP A+ + Y
Sbjct: 167 RRQGISIPIV--GIGGI-TIDNAAPVIQAGADGVSMISAISQAEDPESAARKFREEIQTY 223
>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 = 38.1 bits (88), Expect = 0.002
Identities = 12/73 (16%), Positives = 25/73 (34%), Gaps = 1/73 (1%)
Query: 203 AKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPV 262
A +A + K+L + GG+ D + + G + + PV
Sbjct: 143 AAGVAWGEADITAIKRLSDMGFKVTVTGGL-ALEDLPLFKGIPIHVFIAGRSIRDAASPV 201
Query: 263 KRAQAIVRAVTHY 275
+ A+ R++
Sbjct: 202 EAARQFKRSIAEL 214
>1xi3_A Thiamine phosphate pyrophosphorylase; structural genomics,
southeast collaboratory for structural genomics,
hyperthermophIle; 1.70A {Pyrococcus furiosus} SCOP:
c.1.3.1
Length = 215
Score = 38.0 bits (89), Expect = 0.002
Identities = 18/71 (25%), Positives = 35/71 (49%), Gaps = 5/71 (7%)
Query: 204 KKIAAP--YDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDP 261
K+ A + + + + ++PVV A GG+ +A +++ G DG+ V S V + D
Sbjct: 143 KEDARVIGLEGLRKIVESVKIPVV--AIGGI-NKDNAREVLKTGVDGIAVISAVMGAEDV 199
Query: 262 VKRAQAIVRAV 272
K + + + V
Sbjct: 200 RKATEELRKIV 210
>3o63_A Probable thiamine-phosphate pyrophosphorylase; thiamin
biosynthesis, TIM barrel, transferase; 2.35A
{Mycobacterium tuberculosis}
Length = 243
Score = 38.0 bits (89), Expect = 0.002
Identities = 16/68 (23%), Positives = 26/68 (38%), Gaps = 1/68 (1%)
Query: 207 AAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQ 266
A LV +LG FA GG+ ++ G + V + + DP A+
Sbjct: 175 APGLGLVRVAAELGGDDKPWFAIGGI-NAQRLPAVLDAGARRIVVVRAITSADDPRAAAE 233
Query: 267 AIVRAVTH 274
+ A+T
Sbjct: 234 QLRSALTA 241
>1vhn_A Putative flavin oxidoreducatase; structural genomics, unknown
function; HET: FMN; 1.59A {Thermotoga maritima} SCOP:
c.1.4.1
Length = 318
Score = 37.9 bits (89), Expect = 0.003
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 9/63 (14%)
Query: 65 VPADIRSQGGVARMSDPQLIKEI----KQSVTIPVMAKARIG----HFVE-AQILEAIGI 115
V ++ G A + D + + I ++SV+ K R+G E +IL G+
Sbjct: 95 VRKVVKEGAGGALLKDLRHFRYIVRELRKSVSGKFSVKTRLGWEKNEVEEIYRILVEEGV 154
Query: 116 DYV 118
D V
Sbjct: 155 DEV 157
Score = 29.1 bits (66), Expect = 1.7
Identities = 10/55 (18%), Positives = 18/55 (32%), Gaps = 11/55 (20%)
Query: 45 PEQARVAEEAGACAVMALERVPADIRSQG--GVARMSDPQLIKEIKQSVTIPVMA 97
E R+ E G V + Q G A + + + +++ IP
Sbjct: 143 EEIYRILVEEGVDEVF----IHTRTVVQSFTGRA---EWKALSVLEKR--IPTFV 188
>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 = 37.5 bits (88), Expect = 0.003
Identities = 14/75 (18%), Positives = 29/75 (38%), Gaps = 18/75 (24%)
Query: 211 DLVMQTKQLGRLPVVHFAAG-GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIV 269
L+ + K+ P G G+++P + ++ G G GS AIV
Sbjct: 195 HLIEKLKEYHAAPA---LQGFGISSPEQVSAAVRAGAAGAISGS-------------AIV 238
Query: 270 RAV-THYSDPEVLAE 283
+ + + + P+ +
Sbjct: 239 KIIEKNLASPKQMLA 253
>3ajx_A 3-hexulose-6-phosphate synthase; HPS, OMPDC suprafamily, LYA; 1.60A
{Mycobacterium gastri}
Length = 207
Score = 36.5 bits (84), Expect = 0.005
Identities = 24/133 (18%), Positives = 46/133 (34%), Gaps = 22/133 (16%)
Query: 159 GAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRV--------------LRNMDDDEV----- 199
GA ++ G A I AV+ ++ + V +R + V
Sbjct: 77 GADLVTVLGSADDSTIAGAVKAAQAHNKGVVVDLIGIEDKATRAQEVRALGAKFVEMHAG 136
Query: 200 FTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSG 259
K + ++ + R+P AGGV A + + G + G ++ +
Sbjct: 137 LDEQAKPGFDLNGLLAAGEKARVPFS--VAGGV-KVATIPAVQKAGAEVAVAGGAIYGAA 193
Query: 260 DPVKRAQAIVRAV 272
DP A+ + A+
Sbjct: 194 DPAAAAKELRAAI 206
>1geq_A Tryptophan synthase alpha-subunit; hyperthermophIle, pyrococ
furiosus, X-RAY analysis, stability, calorimetry, lyase;
2.00A {Pyrococcus furiosus} SCOP: c.1.2.4 PDB: 1wdw_A*
2dzu_A 2dzp_A 2e09_A 2dzw_A 2dzs_A 2dzv_A 2dzt_A 2dzx_A
Length = 248
Score = 36.8 bits (86), Expect = 0.005
Identities = 17/68 (25%), Positives = 31/68 (45%), Gaps = 9/68 (13%)
Query: 211 DLVMQTKQLGRLPVVHFAAG-GVATPADAAMMMQLGCDGVFVGSGVFK-----SGDPVKR 264
DL+ + K++ R V A G GV+ +++ G +GV VGS + K + +
Sbjct: 181 DLLRRAKRICRNKV---AVGFGVSKREHVVSLLKEGANGVVVGSALVKIIGEKGREATEF 237
Query: 265 AQAIVRAV 272
+ V +
Sbjct: 238 LKKKVEEL 245
>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 = 36.8 bits (86), Expect = 0.005
Identities = 16/75 (21%), Positives = 27/75 (36%), Gaps = 18/75 (24%)
Query: 211 DLVMQTKQLGRLPVVHFAAG-GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIV 269
L+ + +Q P G G++ PA ++ G G GS A+V
Sbjct: 198 ALLERLQQFDAPPA---LLGFGISEPAQVKQAIEAGAAGAISGS-------------AVV 241
Query: 270 RAV-THYSDPEVLAE 283
+ + TH +P
Sbjct: 242 KIIETHLDNPAKQLT 256
>3qja_A IGPS, indole-3-glycerol phosphate synthase; structural genomics, T
structural genomics consortium, TBSGC, lyase; 1.29A
{Mycobacterium tuberculosis}
Length = 272
Score = 36.4 bits (85), Expect = 0.007
Identities = 20/48 (41%), Positives = 22/48 (45%)
Query: 231 GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTHYSDP 278
GV AD G D V VG G+ SGDP +V A TH S P
Sbjct: 221 GVRGTADLLAYAGAGADAVLVGEGLVTSGDPRAAVADLVTAGTHPSCP 268
Score = 27.5 bits (62), Expect = 5.3
Identities = 20/79 (25%), Positives = 33/79 (41%), Gaps = 16/79 (20%)
Query: 37 GVIMDVVTP-EQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPV 95
G + + P + A+ ++ GA V + + R G + ++ SV+IPV
Sbjct: 66 GALATIADPAKLAQAYQDGGARIVSVV----TEQRRFQG-----SLDDLDAVRASVSIPV 116
Query: 96 MAKARIGHFV--EAQILEA 112
+ K FV QI EA
Sbjct: 117 LRK----DFVVQPYQIHEA 131
>1ep3_A Dihydroorotate dehydrogenase B (PYRD subunit); heterotetramer,
alpha-beta barrel, beta sandwich, FAD domain alpha/beta
NADP domain; HET: FMN FAD; 2.10A {Lactococcus lactis}
SCOP: c.1.4.1 PDB: 1ep2_A* 1ep1_A*
Length = 311
Score = 36.4 bits (85), Expect = 0.009
Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 2/52 (3%)
Query: 213 VMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKR 264
+ Q Q +P++ GGVA D M G V VG+ F +
Sbjct: 233 IHQVAQDVDIPII--GMGGVANAQDVLEMYMAGASAVAVGTANFADPFVCPK 282
Score = 27.2 bits (61), Expect = 6.3
Identities = 14/55 (25%), Positives = 24/55 (43%), Gaps = 7/55 (12%)
Query: 71 SQGGVARMSDPQLIKEI----KQSVTIPVMAK--ARIGHFVE-AQILEAIGIDYV 118
GG A +DP++ + K +P+ K + V A+ +EA G D +
Sbjct: 139 KHGGQAFGTDPEVAAALVKACKAVSKVPLYVKLSPNVTDIVPIAKAVEAAGADGL 193
>3bw2_A 2-nitropropane dioxygenase; TIM barrel, oxidoreductase; HET: FMN;
2.10A {Streptomyces ansochromogenes} PDB: 3bw4_A*
3bw3_A*
Length = 369
Score = 36.2 bits (84), Expect = 0.011
Identities = 13/43 (30%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 211 DLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
L+ Q ++ +PVV AAGG+ A ++ G D +G+
Sbjct: 198 SLLAQVREAVDIPVV--AAGGIMRGGQIAAVLAAGADAAQLGT 238
Score = 31.9 bits (73), Expect = 0.23
Identities = 22/70 (31%), Positives = 37/70 (52%), Gaps = 7/70 (10%)
Query: 35 RGGVIMDVVT-PEQARVAEEAGACAVMA--LE----RVPADIRSQGGVARMSDPQLIKEI 87
G + + T PE+AR E AGA AV+A +E + S+ A + L+ ++
Sbjct: 144 AGTLTLVTATTPEEARAVEAAGADAVIAQGVEAGGHQGTHRDSSEDDGAGIGLLSLLAQV 203
Query: 88 KQSVTIPVMA 97
+++V IPV+A
Sbjct: 204 REAVDIPVVA 213
>3tha_A Tryptophan synthase alpha chain; structural genomics, center for
structural genomics of infec diseases, csgid, lyase;
2.37A {Campylobacter jejuni}
Length = 252
Score = 35.6 bits (83), Expect = 0.014
Identities = 15/76 (19%), Positives = 29/76 (38%), Gaps = 18/76 (23%)
Query: 211 DLVMQTKQLGRLPVVHFAAG-GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIV 269
D V + + LP+ G G+ D M ++ DGV VG+ +IV
Sbjct: 189 DKVKEIRSFTNLPI---FVGFGIQNNQDVKRMRKV-ADGVIVGT-------------SIV 231
Query: 270 RAVTHYSDPEVLAEVS 285
+ + ++ ++
Sbjct: 232 KCFKQGNLDIIMKDIE 247
>3eww_A Ompdecase, orotidine-5'-phosphate decarboxylase; TIM barrel,
unusual catalysis, disease mutati glycosyltransferase,
lyase, multifunctional enzyme; HET: U1P; 1.10A {Homo
sapiens} PDB: 2qcl_A* 2qcm_A* 3ewu_A* 2qcf_A* 3ex6_A*
3ex4_A* 2qcd_A* 2qcc_A 2qcg_A* 2qch_A* 2qcn_A* 2qce_A*
3ewz_A* 3ex1_A* 3ex2_A* 3ex3_A* 3ex0_A* 3ex5_A* 3l0k_A*
3l0n_A* ...
Length = 260
Score = 35.4 bits (81), Expect = 0.015
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 8/55 (14%)
Query: 223 PVVHFAAGG------VATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRA 271
P V AGG +P + + + G D + VG G+ + D ++ A+ +A
Sbjct: 197 PGVQLEAGGDNLGQQYNSPQEV--IGKRGSDIIIVGRGIISAADRLEAAEMYRKA 249
>3g3d_A UMP synthase, uridine 5'-monophosphate synthase; C-terminal domain,
orotidine 5'-monophosphate decarboxylase, human,
5-fluoro-6-azido-UMP; HET: 5FU; 1.70A {Homo sapiens}
PDB: 3bvj_A* 3mw7_A* 2p1f_A 2eaw_A 3bgg_A* 3bgj_A*
Length = 312
Score = 35.4 bits (81), Expect = 0.020
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 8/55 (14%)
Query: 223 PVVHFAAGG------VATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRA 271
P V AGG +P + + + G D + VG G+ + D ++ A+ +A
Sbjct: 249 PGVQLEAGGDNLGQQYNSPQEV--IGKRGSDIIIVGRGIISAADRLEAAEMYRKA 301
>3ceu_A Thiamine phosphate pyrophosphorylase; TIM barrel-like protein,
structural genomics, PSI-2, protein structure
initiative; 2.30A {Bacteroides thetaiotaomicron
vpi-5482}
Length = 210
Score = 33.4 bits (77), Expect = 0.051
Identities = 10/59 (16%), Positives = 21/59 (35%), Gaps = 4/59 (6%)
Query: 217 KQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTHY 275
++ V+ A GG+ + + G G V ++ D Q + + H+
Sbjct: 140 AKIIDSKVM--ALGGI-NEDNLLEIKDFGFGGAVVLGDLWNKFDACL-DQNYLAVIEHF 194
>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 = 33.7 bits (78), Expect = 0.061
Identities = 17/76 (22%), Positives = 26/76 (34%), Gaps = 18/76 (23%)
Query: 211 DLVMQTKQLGRLPVVHFAAG-GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIV 269
V + ++L PV G GV+ A + DGV VGS A+V
Sbjct: 196 KKVEEYRELCDKPV---VVGFGVSKKEHAREIGSF-ADGVVVGS-------------ALV 238
Query: 270 RAVTHYSDPEVLAEVS 285
+ ++ V
Sbjct: 239 KLAGQKKIEDLGNLVK 254
>1kmo_A FECA, iron(III) dicitrate transport protein FECA; membrane protein,
iron transporter, TONB-dependent receptor, siderophore;
HET: LDA HTO; 2.00A {Escherichia coli K12} SCOP: f.4.3.3
PDB: 1kmp_A* 1po0_A* 1pnz_A* 1po3_A* 2d1u_A 1zzv_A
Length = 774
Score = 33.6 bits (77), Expect = 0.079
Identities = 18/122 (14%), Positives = 36/122 (29%), Gaps = 25/122 (20%)
Query: 4 TGVVAVYGNDGAITETKKSP-----FSVKVGLAQMLRGGVIMDVVTPEQARVAEEAGACA 58
+G D ++T K+S + V+ GL Q+L G + + E A A
Sbjct: 54 SGFTLSV--DASLTRGKQSNGLHGDYDVESGLQQLLDGSGLQVKPLGNNSWTLEPAPA-- 109
Query: 59 VMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPVMAKARIGHFVEAQILEAIGIDYV 118
+ + G + + E + + + + G +
Sbjct: 110 -PKEDALTV----VGDWLGDARENDVFEHAGARDV-----------IRREDFAKTGATTM 153
Query: 119 DE 120
E
Sbjct: 154 RE 155
>1ujp_A Tryptophan synthase alpha chain; riken structural genomics/P
initiative, RSGI, structural genomics, lyase; HET: CIT;
1.34A {Thermus thermophilus} SCOP: c.1.2.4 PDB: 1wxj_A*
Length = 271
Score = 32.9 bits (76), Expect = 0.084
Identities = 28/83 (33%), Positives = 34/83 (40%), Gaps = 20/83 (24%)
Query: 211 DLVMQTKQLGRLPVVHFAAG-GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIV 269
DLV + K LPV A G GV+ A AA DGV VGS A+V
Sbjct: 192 DLVRRIKARTALPV---AVGFGVSGKATAAQAA--VADGVVVGS-------------ALV 233
Query: 270 RAVTHYSDP-EVLAEVSCGLGEA 291
RA+ +L E+ GL
Sbjct: 234 RALEEGRSLAPLLQEIRQGLQRL 256
>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 = 32.6 bits (74), Expect = 0.11
Identities = 14/133 (10%), Positives = 34/133 (25%), Gaps = 21/133 (15%)
Query: 159 GAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRV-LRNMDDDEVFTFAKKIAAPYDLVMQTK 217
GA I A I + + G+I++ + + + + +++
Sbjct: 83 GADWITVSAAAHIATIAACKKVADELNGEIQIEIYGNWTMQDAKAWVDLGITQAIYHRSR 142
Query: 218 QLGRLPVVHFA------------------AGGVATPADAAMMMQLGCDGVFVGSGVFKSG 259
+ GG+ P D + + G + +
Sbjct: 143 DAELAGIGWTTDDLDKMRQLSALGIELSITGGI-VPEDIYLFEGIKTKTFIAGRALAGAE 201
Query: 260 DPVKRAQAIVRAV 272
A A+ +
Sbjct: 202 GQQT-AAALREQI 213
>3f4w_A Putative hexulose 6 phosphate synthase; humps, malonate, lyase;
1.65A {Salmonella typhimurium}
Length = 211
Score = 32.5 bits (74), Expect = 0.11
Identities = 24/139 (17%), Positives = 41/139 (29%), Gaps = 21/139 (15%)
Query: 156 IREGAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRV--LRNMDDDEVFTFAKKIAAPYDLV 213
GA + G I +R + + V + D ++ A L
Sbjct: 74 FDAGADYVTVLGVTDVLTIQSCIRAAKEAGKQVVVDMICVDDLPARVRLLEEAGADM-LA 132
Query: 214 MQTKQLGRLPVVHFA-----------------AGGVATPADAAMMMQLGCDGVFVGSGVF 256
+ T + AGG+ + LG D V VGS +
Sbjct: 133 VHTGTDQQAAGRKPIDDLITMLKVRRKARIAVAGGI-SSQTVKDYALLGPDVVIVGSAIT 191
Query: 257 KSGDPVKRAQAIVRAVTHY 275
+ DP A+ I + + +
Sbjct: 192 HAADPAGEARKISQVLLQH 210
>3uy7_A KEMP eliminase KE59 R1 7/10H; structural genomics, israel
structural proteomics center, is barrel, lyase; 1.45A
{Escherichia coli} PDB: 3uxd_A* 3uxa_A* 3nyz_A 3nz1_A*
3uy8_A 3uyc_A 3uzj_A 3uz5_A 1igs_A 1juk_A 1jul_A* 3tc7_A
3tc6_A 1a53_A* 1lbf_A* 1lbl_A* 3nl8_A* 3nxf_A* 3o6y_X
3ud6_A* ...
Length = 252
Score = 32.5 bits (75), Expect = 0.11
Identities = 6/34 (17%), Positives = 18/34 (52%)
Query: 231 GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKR 264
G++ + + +LG + +GS + ++ + +K
Sbjct: 212 GISERNEIEELRKLGVNAFEIGSSLMRNPEKIKE 245
>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 = 32.5 bits (74), Expect = 0.14
Identities = 31/176 (17%), Positives = 57/176 (32%), Gaps = 15/176 (8%)
Query: 80 DPQLIKEIKQSVTIPVMAK-ARIGHFVEAQILEAIGIDYVDESEVLTPADEENHINKHNF 138
P+ + E+ + + V+ G + A I +E + ++
Sbjct: 80 SPEFVIEMGKQGGLGVINAEGLWGRHADLDEAIAKVIAAYEEGDQAAATRTLQELHAAPL 139
Query: 139 RIPFVCGCRNLGEALRRIREGAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRVLRNMDDDE 198
L E + ++R+ N+ E V D+ V+
Sbjct: 140 D------TELLSERIAQVRDSGE--IVAVRVSPQNVREIAPIVIKAGADLLVI-----QG 186
Query: 199 VFTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSG 254
A+ + + + + +G L V AGGV A MM+ G G+ VG G
Sbjct: 187 TLISAEHVNTGGEALNLKEFIGSLDVP-VIAGGVNDYTTALHMMRTGAVGIIVGGG 241
>3sr7_A Isopentenyl-diphosphate delta-isomerase; isopentenyl pyrophosphate
isomerase, TIM-barrel; 2.04A {Streptococcus mutans}
Length = 365
Score = 32.5 bits (74), Expect = 0.14
Identities = 33/224 (14%), Positives = 68/224 (30%), Gaps = 32/224 (14%)
Query: 48 ARVAEEAGACAVMALERVPA-DIRSQGGVARMSDPQLIKEIKQSVTIPVMAKARIGHFVE 106
A+VA+ G V + + S P L+ + P A + ++
Sbjct: 109 AQVADTCGLLFVTGSYSTALKNPDDTSYQVKKSRPHLLLATNIGLDKPYQAGLQAVRDLQ 168
Query: 107 AQILEAIGIDYVDESEV-------LTPADEENHINKHNFRIPFVCGCRNLGEALRRIRE- 158
L + I+ + E + + + ++PF+ G ++ I+
Sbjct: 169 PLFL-QVHINLMQELLMPEGEREFRSWKKHLSDY-AKKLQLPFILKEVGFGMDVKTIQTA 226
Query: 159 ---GAAMIRTKGEAGT-GNIIEAVRHVRSVMGDIRVLRNMDDDEVFTFAKKIAAPYDLVM 214
G + G GT IE R + + L+
Sbjct: 227 IDLGVKTVDISGRGGTSFAYIENRR---------------GGNRSYLNQWGQTTAQVLLN 271
Query: 215 QTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKS 258
+ ++ + A+GG+ P D + LG V + + +
Sbjct: 272 AQPLMDKVEI--LASGGIRHPLDIIKALVLGAKAVGLSRTMLEL 313
>3tsm_A IGPS, indole-3-glycerol phosphate synthase; structural genomics,
ssgcid, seattle structural GE center for infectious
disease, lyase; 2.15A {Brucella melitensis}
Length = 272
Score = 32.2 bits (74), Expect = 0.18
Identities = 7/41 (17%), Positives = 16/41 (39%)
Query: 231 GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRA 271
G+ T D + + G +G + + D +A++
Sbjct: 228 GIFTHEDCLRLEKSGIGTFLIGESLMRQHDVAAATRALLTG 268
>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 = 32.5 bits (74), Expect = 0.19
Identities = 27/176 (15%), Positives = 60/176 (34%), Gaps = 57/176 (32%)
Query: 9 VYGNDGAITETKKS-----------PFSVKVGLAQML----RGGVIM---DVVTPEQARV 50
+G DG +E+K S ++ ++ + + RG +M +++ A
Sbjct: 633 TFGGDGMYSESKLSLETLFNRWHSESWANQLTVCGAIIGWTRGTGLMSANNII----AEG 688
Query: 51 AEEAGAC----AVMALERV---PADIRSQ-----------GGVARMSDPQLIKEIKQSVT 92
E+ G MA + ++ GG+ + + +KE
Sbjct: 689 IEKMGVRTFSQKEMAFNLLGLLTPEVVELCQKSPVMADLNGGLQFVPE---LKEF----- 740
Query: 93 IPVMAKARIGHFVEAQILEAIGIDYVDESEVLTPADEENHINKH------NFRIPF 142
AK R +++ +A+ I+ E +V+ + + N ++ F
Sbjct: 741 ---TAKLRKELVETSEVRKAVSIETALEHKVVNGNSADAAYAQVEIQPRANIQLDF 793
>3b0p_A TRNA-dihydrouridine synthase; TIM barrel, oxidoreductase; HET: FMN;
1.70A {Thermus thermophilus} PDB: 3b0u_X* 3b0v_C*
Length = 350
Score = 31.8 bits (73), Expect = 0.22
Identities = 9/33 (27%), Positives = 16/33 (48%), Gaps = 4/33 (12%)
Query: 74 GVARMSDPQL----IKEIKQSVTIPVMAKARIG 102
G + D +K + ++V +PV K R+G
Sbjct: 104 GACLLLDLARVREILKAMGEAVRVPVTVKMRLG 136
>1w8s_A FBP aldolase, fructose-bisphosphate aldolase class I; TIM barrel,
glycolytic, archaeal, catalytic mechanism, reaction
intermediate, lyase; HET: FBP; 1.85A {Thermoproteus
tenax} SCOP: c.1.10.1 PDB: 1w8r_A* 2yce_A* 1ojx_A 1ok4_A
1ok6_A
Length = 263
Score = 31.7 bits (71), Expect = 0.23
Identities = 14/59 (23%), Positives = 27/59 (45%), Gaps = 5/59 (8%)
Query: 220 GRLPVVHFAAGGVATPADAAMM----MQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTH 274
G++PV+ T D ++ G G+ VG V++ D +K A+A+ + +
Sbjct: 195 GKVPVLMSGGPKTKTEEDFLKQVEGVLEAGALGIAVGRNVWQRRDALKFARAL-AELVY 252
>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 = 30.7 bits (68), Expect = 0.29
Identities = 7/29 (24%), Positives = 16/29 (55%), Gaps = 7/29 (24%)
Query: 80 DPQLIKEIKQSVTI------PVMA-KARI 101
+ Q +K+++ S+ + P +A KA +
Sbjct: 18 EKQALKKLQASLKLYADDSAPALAIKATM 46
>1m3u_A 3-methyl-2-oxobutanoate hydroxymethyltransferase;
beta-alpha-barrel, TIM-barrel, ketopantoate,
selenomethionin decamer; HET: KPL; 1.80A {Escherichia
coli} SCOP: c.1.12.8
Length = 264
Score = 31.3 bits (72), Expect = 0.35
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 15/50 (30%)
Query: 46 EQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPV 95
A E AGA ++ LE VP + L K I +++ IPV
Sbjct: 165 SDALALEAAGAQLLV-LECVPVE--------------LAKRITEALAIPV 199
>3tfx_A Orotidine 5'-phosphate decarboxylase; PSI-biology, nysgrc, 000529,
structural genomics, NEW YORK S genomics research
consortium; 2.19A {Lactobacillus acidophilus}
Length = 259
Score = 31.0 bits (71), Expect = 0.36
Identities = 12/39 (30%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 232 VATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVR 270
VATP A + G + VG + + DP +AI +
Sbjct: 199 VATPKMA---KEWGSSAIVVGRPITLASDPKAAYEAIKK 234
>3oix_A Putative dihydroorotate dehydrogenase; dihydrooro oxidase; TIM
barrel, oxidoreductase; HET: MLY FMN; 2.40A
{Streptococcus mutans}
Length = 345
Score = 31.4 bits (71), Expect = 0.38
Identities = 10/40 (25%), Positives = 18/40 (45%), Gaps = 2/40 (5%)
Query: 220 GRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSG 259
+ ++ GGV T DA + G V +G+ + + G
Sbjct: 274 PSIQII--GTGGVXTGRDAFEHILCGASMVQIGTALHQEG 311
>1o66_A 3-methyl-2-oxobutanoate hydroxymethyltransferase; structural
genomics; HET: MSE; 1.75A {Neisseria meningitidis
serogroup B} SCOP: c.1.12.8 PDB: 1o68_A*
Length = 275
Score = 31.0 bits (71), Expect = 0.40
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 15/50 (30%)
Query: 46 EQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPV 95
A+ ++AGA V+ +E V A+ L K++ ++V+ P
Sbjct: 165 NDAKAHDDAGAAVVL-MECVLAE--------------LAKKVTETVSCPT 199
>3vav_A 3-methyl-2-oxobutanoate hydroxymethyltransferase; structural
genomics, seattle structural genomics center for
infectious disease; 1.80A {Burkholderia thailandensis}
PDB: 3ez4_A
Length = 275
Score = 30.6 bits (70), Expect = 0.53
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 15/50 (30%)
Query: 46 EQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPV 95
AR EEAGA ++ LE VP + E+ + ++IP
Sbjct: 177 RDARAVEEAGAQLIV-LEAVPTL--------------VAAEVTRELSIPT 211
>3vkj_A Isopentenyl-diphosphate delta-isomerase; type 2 isopentenyl
diphosphate isomerase; HET: FNR; 1.70A {Sulfolobus
shibatae} PDB: 2zrv_A* 2zrw_A* 2zrx_A* 2zry_A* 2zrz_A*
3b03_A* 3b04_A* 3b05_A* 3b06_A* 2zru_A*
Length = 368
Score = 31.0 bits (70), Expect = 0.54
Identities = 42/231 (18%), Positives = 77/231 (33%), Gaps = 30/231 (12%)
Query: 48 ARVAEEAGACAVM-----ALERVPAD--------------IRSQGGVARMSDPQLIKEIK 88
A VAE+ G + A+E+ A I + G+ ++ +KE +
Sbjct: 82 AEVAEKFGIPMGVGSQRVAIEKAEARESFAIVRKVAPTIPIIANLGMPQLVKGYGLKEFQ 141
Query: 89 QSVTIPVMAKARIGHFVEAQILEAIGIDYVDESEVLTPADEENHINKHNFRIPFVCGCRN 148
++ + A A H AQ + + + L + + + +
Sbjct: 142 DAIQMI-EADAIAVHLNPAQEVFQPEGEPEYQIYALEKLRDISKELSVPIIVKESGNGIS 200
Query: 149 LGEALRRIREGAAMIRTKGEAGTGNI-IEAVRHVRSVMGDIRVLRNMDDDEVFTFAKKIA 207
+ A G T G+ GT I IE +R +R +N D +
Sbjct: 201 METAKLLYSYGIKNFDTSGQGGTNWIAIEMIRDIRRGNWKAESAKNFLDW-------GVP 253
Query: 208 APYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKS 258
++ + + +GG+ + DAA + LG D + V KS
Sbjct: 254 TAASIMEVRYSVPDSFL--VGSGGIRSGLDAAKAIALGADIAGMALPVLKS 302
>1oy0_A Ketopantoate hydroxymethyltransferase; domain swapping, structural
genomics, PSI, protein structure initiative; 2.80A
{Mycobacterium tuberculosis} SCOP: c.1.12.8
Length = 281
Score = 30.2 bits (69), Expect = 0.65
Identities = 16/50 (32%), Positives = 21/50 (42%), Gaps = 15/50 (30%)
Query: 46 EQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPV 95
A EAGA AV+ +E VPA+ L +I +TIP
Sbjct: 183 ADAIAVAEAGAFAVV-MEMVPAE--------------LATQITGKLTIPT 217
>3glc_A Aldolase LSRF; TIM barrel, lyase, schiff base; HET: R5P; 2.50A
{Escherichia coli} PDB: 3gnd_A* 3gkf_O
Length = 295
Score = 30.6 bits (68), Expect = 0.67
Identities = 19/74 (25%), Positives = 30/74 (40%), Gaps = 6/74 (8%)
Query: 205 KIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMM----MQLGCDGVFVGSGVFKSGD 260
K + +P+V A G +A M + G GV +G +F+S
Sbjct: 207 KTYYVEKGFERIVAGCPVPIV-IAGGKKLPEREALEMCWQAIDQGASGVDMGRNIFQSDH 265
Query: 261 PVKRAQAIVRAVTH 274
PV +A+ +AV H
Sbjct: 266 PVAMMKAV-QAVVH 278
>1dbt_A Orotidine 5'-phosphate decarboxylase; UMP, TIM barrel, lyase; HET:
U5P; 2.40A {Bacillus subtilis} SCOP: c.1.2.3
Length = 239
Score = 29.8 bits (68), Expect = 0.81
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 3/39 (7%)
Query: 232 VATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVR 270
VATPA A + G + VG + K+ DPVK +A+
Sbjct: 197 VATPAIA---REKGSSAIVVGRSITKAEDPVKAYKAVRL 232
>2czd_A Orotidine 5'-phosphate decarboxylase; pyrimidine biosynthesis,
orotidine 5'-phosphate decarboxylas (ompdecase),
structural genomics; 1.60A {Pyrococcus horikoshii} SCOP:
c.1.2.3 PDB: 2cz5_A 2cze_A* 2czf_A*
Length = 208
Score = 29.6 bits (67), Expect = 0.87
Identities = 10/37 (27%), Positives = 19/37 (51%), Gaps = 3/37 (8%)
Query: 233 ATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIV 269
DA ++ G D + VG ++ + +P + A+AI
Sbjct: 169 GKAKDA---VKAGADYIIVGRAIYNAPNPREAAKAIY 202
>3ru6_A Orotidine 5'-phosphate decarboxylase; structural genomics, center
for structural genomics of infec diseases (csgid),
TIM-barrel; 1.80A {Campylobacter jejuni subsp}
Length = 303
Score = 30.0 bits (68), Expect = 0.90
Identities = 10/38 (26%), Positives = 18/38 (47%), Gaps = 3/38 (7%)
Query: 232 VATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIV 269
VA A A + D + VG ++K+ +P + I+
Sbjct: 213 VANLAMA---RENLSDYIVVGRPIYKNENPRAVCEKIL 247
>1viz_A PCRB protein homolog; structural genomics, unknown function; 1.85A
{Bacillus subtilis} SCOP: c.1.4.1
Length = 240
Score = 29.7 bits (66), Expect = 0.95
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 4/44 (9%)
Query: 229 AGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAV 272
GG+ A + D + VG+ V++ RA V AV
Sbjct: 188 GGGIKDAETAKQYAE-HADVIVVGNAVYED---FDRALKTVAAV 227
>3ldv_A Orotidine 5'-phosphate decarboxylase; structural genomics,
infectious diseases; 1.77A {Vibrio cholerae o1 biovar el
tor} PDB: 3uwq_A*
Length = 255
Score = 29.5 bits (67), Expect = 1.1
Identities = 9/39 (23%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 232 VATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVR 270
+ TPA A + G D + +G + ++ P + I
Sbjct: 217 IMTPAQA---IASGSDYLVIGRPITQAAHPEVVLEEINS 252
>3tr2_A Orotidine 5'-phosphate decarboxylase; purines, pyrimidines,
nucleosides, nucleotides, lyase; 2.00A {Coxiella
burnetii}
Length = 239
Score = 29.4 bits (67), Expect = 1.1
Identities = 14/39 (35%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 232 VATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVR 270
V TP A +Q G D + +G + +S DP+K +AI +
Sbjct: 199 VMTPRAA---IQAGSDYLVIGRPITQSTDPLKALEAIDK 234
>3vk5_A MOEO5; TIM barrel, transferase; HET: FPQ; 1.39A {Streptomyces
ghanaensis} PDB: 3vka_A* 3vkb_A* 3vkc_A* 3vkd_A*
Length = 286
Score = 29.8 bits (66), Expect = 1.1
Identities = 32/235 (13%), Positives = 66/235 (28%), Gaps = 11/235 (4%)
Query: 46 EQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPVMAKARIGHFV 105
E+A G AV+ + + +K + +PV+
Sbjct: 57 EKAAELTRLGFAAVLL-------ASTDYESFESHMEPYVAAVKAATPLPVVLHFPPRPGA 109
Query: 106 EAQILEAIGIDYVDESEVLTPADEENHINKHNFRIPFVCGCRNLGEALRRIREGAAMIRT 165
++ G D + +L D+ + G E + A
Sbjct: 110 GFPVVR--GADALLLPALLGSGDDYFVWKSFLETLAAFPGRIPREEWPELLLTVALTFGE 167
Query: 166 KGEAG--TGNIIEAVRHVRSVMGDIRVLRNMDDDEVFTFAKKIAAPYDLVMQTKQLGRLP 223
G G + + + + V R V+ +++ P ++V ++
Sbjct: 168 DPRTGDLLGTVPVSTASTEEIDRYLHVARAFGFHMVYLYSRNEHVPPEVVRHFRKGLGPD 227
Query: 224 VVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTHYSDP 278
V F +G V + + G D V + + A+ R + P
Sbjct: 228 QVLFVSGNVRSGRQVTEYLDSGADYVGFAGALEQPDWRSALAEIAGRRPAAPARP 282
>1eix_A Orotidine 5'-monophosphate decarboxylase; alpha-beta-barrel,
protein-inhibitor complex, homodimer, lyase; HET: BMQ;
2.50A {Escherichia coli} SCOP: c.1.2.3 PDB: 1jjk_A*
1l2u_A
Length = 245
Score = 29.5 bits (67), Expect = 1.1
Identities = 12/39 (30%), Positives = 19/39 (48%), Gaps = 3/39 (7%)
Query: 232 VATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVR 270
+ TP A + G D + +G V +S DP + +AI
Sbjct: 204 IMTPEQA---LSAGVDYMVIGRPVTQSVDPAQTLKAINA 239
>1p0k_A Isopentenyl-diphosphate delta-isomerase; terpene biosynthesis,
dimethylallyl diphosphate, flavoprotein; 1.90A {Bacillus
subtilis} SCOP: c.1.4.1 PDB: 1p0n_A*
Length = 349
Score = 29.7 bits (67), Expect = 1.1
Identities = 36/226 (15%), Positives = 61/226 (26%), Gaps = 33/226 (14%)
Query: 48 ARVAEEAGACAV---MALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPVMAKARIGHF 104
AR A +AG R + R +P +
Sbjct: 79 ARAASQAGIPLAVGSQMSALKDPSERLSYEIVRKENPNGLIFANLGSEATAAQAKEAVEM 138
Query: 105 VEAQILEAIGIDYVDESEVLTPADEENHIN--------KHNFRIPFV---CGCRNLGEAL 153
+ A A+ I E++ P + + +P + G +
Sbjct: 139 IGA---NALQIHLNVIQEIVMPEGDRSFSGALKRIEQICSRVSVPVIVKEVGFGMSKASA 195
Query: 154 RRIRE-GAAMIRTKGEAGTGNIIEAVRHVRSVMGDIRVLRNMDDDEVFTFAKKIAAPYDL 212
++ E GAA + G GT I LR F + I+ L
Sbjct: 196 GKLYEAGAAAVDIGGYGGT------------NFSKIENLRRQRQISFFN-SWGISTAASL 242
Query: 213 VMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKS 258
+ + A+GG+ D A + LG + K+
Sbjct: 243 AEIRSEFPASTM--IASGGLQDALDVAKAIALGASCTGMAGHFLKA 286
>3bo9_A Putative nitroalkan dioxygenase; TM0800, structural genomics center
for structural genomics, JCSG, protein structure INI
PSI-2; HET: MSE 2PE; 2.71A {Thermotoga maritima MSB8}
Length = 326
Score = 29.6 bits (67), Expect = 1.2
Identities = 14/42 (33%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 212 LVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
LV + + +PV+ AAGG+A A LG + V +G+
Sbjct: 167 LVNKVSRSVNIPVI--AAGGIADGRGMAAAFALGAEAVQMGT 206
Score = 27.3 bits (61), Expect = 7.8
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 15/65 (23%)
Query: 38 VIMDVVTPEQARVAEEAGACAVMALERVPADIRSQGG-----VARMSDPQLIKEIKQSVT 92
VI V + AR+ E AGA AV+A +G + ++ L+ ++ +SV
Sbjct: 127 VIPVVASDSLARMVERAGADAVIA----------EGMESGGHIGEVTTFVLVNKVSRSVN 176
Query: 93 IPVMA 97
IPV+A
Sbjct: 177 IPVIA 181
>2v82_A 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; lyase, kdpgal;
HET: KDP; 2.1A {Escherichia coli} PDB: 2v81_A*
Length = 212
Score = 29.4 bits (66), Expect = 1.2
Identities = 19/50 (38%), Positives = 29/50 (58%), Gaps = 5/50 (10%)
Query: 227 FAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPV----KRAQAIVRAV 272
FA GGV TP + A + GC G +GS ++++G V ++A A V+A
Sbjct: 152 FAVGGV-TPENLAQWIDAGCAGAGLGSDLYRAGQSVERTAQQAAAFVKAY 200
>1vc4_A Indole-3-glycerol phosphate synthase; lyase, tryptophan
biosynthesis, riken structural genomics/PR initiative,
RSGI, structural genomics; 1.80A {Thermus thermophilus}
SCOP: c.1.2.4
Length = 254
Score = 29.5 bits (67), Expect = 1.3
Identities = 20/78 (25%), Positives = 32/78 (41%), Gaps = 15/78 (19%)
Query: 37 GVIMDVVTPEQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPVM 96
G+I +V E A GA AV L + GG +K ++++V +P++
Sbjct: 60 GLIREVDPVEAALAYARGGARAVSVL----TEPHRFGG-----SLLDLKRVREAVDLPLL 110
Query: 97 AKARIGHFV--EAQILEA 112
K FV + EA
Sbjct: 111 RK----DFVVDPFMLEEA 124
Score = 27.5 bits (62), Expect = 4.8
Identities = 6/39 (15%), Positives = 16/39 (41%), Gaps = 1/39 (2%)
Query: 231 GVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIV 269
G + + + D V +G+ + ++ D + +V
Sbjct: 216 GYSRKEELKALEG-LFDAVLIGTSLMRAPDLEAALRELV 253
>2yyu_A Orotidine 5'-phosphate decarboxylase; TIM barrel, structural
genomics, NPPSFA, national project on structural and
functional analyses; HET: C5P; 2.20A {Geobacillus
kaustophilus} PDB: 2yyt_A*
Length = 246
Score = 29.5 bits (67), Expect = 1.3
Identities = 10/39 (25%), Positives = 18/39 (46%), Gaps = 3/39 (7%)
Query: 232 VATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVR 270
V TP A LG D + +G + ++ DP++ +
Sbjct: 198 VVTPRKA---RALGSDYIVIGRSLTRAADPLRTYARLQH 233
>1kbi_A Cytochrome B2, L-LCR; flavocytochrome B2, electron transfer,
oxidoreductase; HET: HEM FMN; 2.30A {Saccharomyces
cerevisiae} SCOP: c.1.4.1 d.120.1.1 PDB: 1fcb_A* 1lco_A*
1ldc_A* 1sze_A* 2oz0_A* 1szf_A* 1szg_A* 1ltd_A* 1kbj_A*
1qcw_A* 3ks0_A*
Length = 511
Score = 29.6 bits (67), Expect = 1.3
Identities = 6/21 (28%), Positives = 9/21 (42%)
Query: 231 GVATPADAAMMMQLGCDGVFV 251
GV D ++G GV +
Sbjct: 350 GVQRTEDVIKAAEIGVSGVVL 370
>2fli_A Ribulose-phosphate 3-epimerase; (beta/alpha)8-barrel, D- xylitol
5-phosphate, isomerase; HET: DX5; 1.80A {Streptococcus
pyogenes} SCOP: c.1.2.2
Length = 220
Score = 29.0 bits (66), Expect = 1.4
Identities = 14/40 (35%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 230 GGVATPADAAMMMQLGCDGVFV-GSGVFKSGDPVKRAQAI 268
GGV + G + VFV GS +FK+ D V + Q +
Sbjct: 177 GGV-DNKTIRACYEAGAN-VFVAGSYLFKASDLVSQVQTL 214
>2qjg_A Putative aldolase MJ0400; beta-alpha barrel, lyase; HET: F2P; 2.60A
{Methanocaldococcus jannaschii} PDB: 2qjh_A 2qji_A
Length = 273
Score = 29.4 bits (65), Expect = 1.4
Identities = 16/56 (28%), Positives = 23/56 (41%), Gaps = 5/56 (8%)
Query: 223 PVVHFAAGGVATPADAAMM----MQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTH 274
PVV T + M M+ G GV VG +F+ D V +A+ + H
Sbjct: 204 PVVVAGGPKTNTDEEFLQMIKDAMEAGAAGVAVGRNIFQHDDVVGITRAV-CKIVH 258
>2c5s_A THII, probable thiamine biosynthesis protein THII; RNA-binding
protein, RNA binding protein, tRNA modification,
4-thiouridine synthase; HET: AMP; 2.5A {Bacillus
anthracis} SCOP: c.26.2.6 d.308.1.1
Length = 413
Score = 29.5 bits (66), Expect = 1.4
Identities = 16/92 (17%), Positives = 33/92 (35%), Gaps = 6/92 (6%)
Query: 187 DIRVLRNMDDDEVFTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGC 246
D+ V + + + L + V+ +GG+ +P A + M+ G
Sbjct: 157 DVNVRVEIRSGYSYIMCDERMGAGGLPVGVGG----KVMVLLSGGIDSPVAAYLTMKRGV 212
Query: 247 --DGVFVGSGVFKSGDPVKRAQAIVRAVTHYS 276
+ V S F S ++ + + +T Y
Sbjct: 213 SVEAVHFHSPPFTSERAKQKVIDLAQELTKYC 244
>1jub_A Dihydroorotate dehydrogenase A; homodimer, alpha-beta barrel,
flavoprotein, mutant enzyme, oxidoreductase; HET: FMN;
1.40A {Lactococcus lactis} SCOP: c.1.4.1 PDB: 1ovd_A*
1jue_A* 1dor_A* 2bsl_A* 2bx7_A* 2dor_A* 1jqv_A* 1jrb_A*
1jrc_A* 1jqx_A*
Length = 311
Score = 29.1 bits (66), Expect = 1.8
Identities = 9/40 (22%), Positives = 18/40 (45%), Gaps = 2/40 (5%)
Query: 220 GRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSG 259
+ ++ GG+ T DA + G + +G+ + K G
Sbjct: 241 PEIQII--GTGGIETGQDAFEHLLCGATMLQIGTALHKEG 278
>2imr_A Hypothetical protein DR_0824; zinc, NYSGXRC, PSI2, structural
genomics, protein structure initiative; 1.78A
{Deinococcus radiodurans} SCOP: b.92.1.11 c.1.9.16
Length = 420
Score = 29.3 bits (66), Expect = 1.8
Identities = 6/53 (11%), Positives = 14/53 (26%), Gaps = 4/53 (7%)
Query: 15 AITETKKSPFSVKVGLAQMLRGGV--IMDVVT--PEQARVAEEAGACAVMALE 63
+ + + G + R G + D+V + + E
Sbjct: 123 IRGRHLRGVAAAQAGADTLTRLGAGGVGDIVWAPEVMDALLAREDLSGTLYFE 175
>3sgz_A Hydroxyacid oxidase 2; flavoprotein, homology, INH
oxidoreductase-oxidoreductase inhibitor complex; HET:
FMN HO6; 1.35A {Rattus norvegicus} PDB: 1tb3_A*
Length = 352
Score = 29.0 bits (66), Expect = 2.2
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 231 GVATPADAAMMMQLGCDGVFV 251
G+ T DA + M+ G+ V
Sbjct: 224 GILTKEDAELAMKHNVQGIVV 244
>2gjl_A Hypothetical protein PA1024; 2-nitropropane dioxygenase,
2-nitropropane, FMN, oxidoreduct; HET: FMN; 2.00A
{Pseudomonas aeruginosa PAO1} PDB: 2gjn_A*
Length = 328
Score = 28.8 bits (65), Expect = 2.3
Identities = 11/42 (26%), Positives = 20/42 (47%), Gaps = 2/42 (4%)
Query: 212 LVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
L+ R+P++ A+GG A + LG D + +G+
Sbjct: 163 LLPAAANRLRVPII--ASGGFADGRGLVAALALGADAINMGT 202
Score = 27.7 bits (62), Expect = 5.2
Identities = 12/60 (20%), Positives = 20/60 (33%), Gaps = 3/60 (5%)
Query: 38 VIMDVVTPEQARVAEEAGACAVMALERVPADIRSQGGVARMSDPQLIKEIKQSVTIPVMA 97
VI A AE G AV A + + + L+ + +P++A
Sbjct: 121 VIHKCTAVRHALKAERLGVDAVSIDGFECAGHPGEDDIPGLV---LLPAAANRLRVPIIA 177
>1gox_A (S)-2-hydroxy-acid oxidase, peroxisomal; oxidoreductase
(oxygen(A)); HET: FMN; 2.00A {Spinacia oleracea} SCOP:
c.1.4.1 PDB: 1gyl_A* 1al8_A* 1al7_A* 2cdh_0
Length = 370
Score = 28.7 bits (65), Expect = 2.3
Identities = 9/21 (42%), Positives = 12/21 (57%)
Query: 231 GVATPADAAMMMQLGCDGVFV 251
GV T DA + +Q G G+ V
Sbjct: 232 GVITAEDARLAVQHGAAGIIV 252
>2z6i_A Trans-2-enoyl-ACP reductase II; fatty acid synthesis, antibiotics,
oxidoreductase, flavoprotein; HET: FMN; 1.70A
{Streptococcus pneumoniae} PDB: 2z6j_A*
Length = 332
Score = 28.8 bits (65), Expect = 2.3
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 212 LVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGS 253
LV Q +PV+ AAGG+A AA LG + V VG+
Sbjct: 153 LVRQVATAISIPVI--AAGGIADGEGAAAGFMLGAEAVQVGT 192
Score = 26.9 bits (60), Expect = 9.1
Identities = 16/65 (24%), Positives = 33/65 (50%), Gaps = 15/65 (23%)
Query: 38 VIMDVVTPEQARVAEEAGACAVMALERVPADIRSQGG-----VARMSDPQLIKEIKQSVT 92
VI V + A+ E+ GA AV+A +G + +++ L++++ +++
Sbjct: 113 VIPVVPSVALAKRMEKIGADAVIA----------EGMEAGGHIGKLTTMTLVRQVATAIS 162
Query: 93 IPVMA 97
IPV+A
Sbjct: 163 IPVIA 167
>2e6f_A Dihydroorotate dehydrogenase; chagas disease, pyrimidine
biosynthesis, fumarate reductase, energy metabolism,
redox homeostasis, flavoprotein; HET: FMN OXC; 1.26A
{Trypanosoma cruzi} PDB: 2e6a_A* 2e6d_A* 2e68_A* 2djl_A*
2djx_A* 3c3n_A* 2b4g_A* 3c61_A* 3mhu_A* 3mjy_A*
Length = 314
Score = 28.7 bits (65), Expect = 2.5
Identities = 14/76 (18%), Positives = 23/76 (30%), Gaps = 20/76 (26%)
Query: 217 KQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTHYS 276
++ V GGV + DA + + G V VG+ +
Sbjct: 240 RRCPDKLVF--GCGGVYSGEDAFLHILAGASMVQVGTAL------------------QEE 279
Query: 277 DPEVLAEVSCGLGEAM 292
P + + L E M
Sbjct: 280 GPGIFTRLEDELLEIM 295
>1jvn_A Glutamine, bifunctional histidine biosynthesis protein hishf;
substrate channeling, amidotransferase, TIM-barrel AS A
SUBS tunnel; HET: 143; 2.10A {Saccharomyces cerevisiae}
SCOP: c.1.2.1 c.23.16.1 PDB: 1ox4_B* 1ox5_A* 1ox6_A
1ox4_A
Length = 555
Score = 28.6 bits (64), Expect = 2.9
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 80 DPQLIKEIKQSVTIPVMAK---ARIGHFVEA 107
D +LI+ +K +V IPV+A HF EA
Sbjct: 484 DLELIEHVKDAVKIPVIASSGAGVPEHFEEA 514
>2nli_A Lactate oxidase; flavoenzyme, FMN, D-lactate, oxidoreducta; HET:
FMN; 1.59A {Aerococcus viridans} PDB: 2zfa_A* 2du2_A*
2e77_A* 2j6x_A*
Length = 368
Score = 28.3 bits (64), Expect = 3.1
Identities = 8/21 (38%), Positives = 13/21 (61%)
Query: 231 GVATPADAAMMMQLGCDGVFV 251
G+ P DA M ++ G G++V
Sbjct: 236 GIQHPEDADMAIKRGASGIWV 256
>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 = 28.3 bits (64), Expect = 3.1
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 228 AAGGVATPADAAMMMQLGCD 247
A+GG+ + DA + + G D
Sbjct: 197 ASGGIRSGIDAVLAVGAGAD 216
>1p4c_A L(+)-mandelate dehydrogenase; TIM barrel, hydroxy acid oxidizing
enzyme, oxidoreductase; HET: FMN MES; 1.35A {Pseudomonas
putida} SCOP: c.1.4.1 PDB: 1huv_A* 1p5b_A* 3giy_A*
2a7p_A* 2a85_A* 2a7n_A*
Length = 380
Score = 28.3 bits (64), Expect = 3.1
Identities = 7/21 (33%), Positives = 11/21 (52%)
Query: 231 GVATPADAAMMMQLGCDGVFV 251
G+ + DA + G DGV +
Sbjct: 232 GLLSAEDADRCIAEGADGVIL 252
>1rpx_A Protein (ribulose-phosphate 3-epimerase); chloroplast, calvin
cycle, oxidative pentose PH pathway; 2.30A {Solanum
tuberosum} SCOP: c.1.2.2
Length = 230
Score = 28.3 bits (64), Expect = 3.1
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 3/40 (7%)
Query: 230 GGVATPADAAMMMQLGCDGVFV-GSGVFKSGDPVKRAQAI 268
GGV P +A +++ G + V GS VF + D + + I
Sbjct: 186 GGV-GPKNAYKVIEAGAN-ALVAGSAVFGAPDYAEAIKGI 223
>2nzl_A Hydroxyacid oxidase 1; HAOX1, glycolate oxidase, GOX, GOX1,
structural genomics, structural genom consortium, SGC,
oxidoreductase; HET: FMN; 1.35A {Homo sapiens} PDB:
2rdu_A* 2rdt_A* 2rdw_A* 2w0u_A*
Length = 392
Score = 28.3 bits (64), Expect = 3.2
Identities = 6/21 (28%), Positives = 11/21 (52%)
Query: 231 GVATPADAAMMMQLGCDGVFV 251
G+ DA ++ G +G+ V
Sbjct: 259 GILRGDDAREAVKHGLNGILV 279
>3oa3_A Aldolase; structural genomics, seattle structural genomics center
for infectious disease, ssgcid, pathogenic fungus; 1.60A
{Coccidioides immitis}
Length = 288
Score = 28.1 bits (63), Expect = 3.2
Identities = 7/20 (35%), Positives = 12/20 (60%)
Query: 228 AAGGVATPADAAMMMQLGCD 247
A+GG+ T D M++ G +
Sbjct: 239 ASGGIRTIEDCVKMVRAGAE 258
>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 = 3.3
Identities = 9/20 (45%), Positives = 11/20 (55%)
Query: 228 AAGGVATPADAAMMMQLGCD 247
AAGG+ T DA M+ G
Sbjct: 205 AAGGIRTFDDAMKMINNGAS 224
>1z2l_A Allantoate amidohydrolase; ALLC, purine cataboli allantoin
utilization, structural genomics, PSI, Pro structure
initiative; HET: 1AL; 2.25A {Escherichia coli} SCOP:
c.56.5.4 d.58.19.1 PDB: 2imo_A
Length = 423
Score = 28.3 bits (64), Expect = 3.4
Identities = 11/58 (18%), Positives = 18/58 (31%), Gaps = 6/58 (10%)
Query: 187 DIR-----VLRNMDDDEVFTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAA 239
D R VLR+ ++ + I D+ + V VAT +
Sbjct: 288 DCRHTDAAVLRDFTQ-QLENDMRAICDEMDIGIDIDLWMDEEPVPMNKELVATLTELC 344
>1tqj_A Ribulose-phosphate 3-epimerase; beta-alpha barrel epimerase,
isomerase; 1.60A {Synechocystis SP} SCOP: c.1.2.2
Length = 230
Score = 27.9 bits (63), Expect = 3.5
Identities = 9/40 (22%), Positives = 19/40 (47%), Gaps = 3/40 (7%)
Query: 230 GGVATPADAAMMMQLGCDGVFV-GSGVFKSGDPVKRAQAI 268
GG+ P + +++ G + V GS VF + + + +
Sbjct: 180 GGL-KPNNTWQVLEAGAN-AIVAGSAVFNAPNYAEAIAGV 217
>1ea0_A Glutamate synthase [NADPH] large chain; oxidoreductase, iron
sulphur flavoprotein; HET: OMT FMN AKG; 3.0A
{Azospirillum brasilense} SCOP: b.80.4.1 c.1.4.1
d.153.1.1 PDB: 2vdc_A*
Length = 1479
Score = 28.6 bits (65), Expect = 3.6
Identities = 17/75 (22%), Positives = 30/75 (40%), Gaps = 18/75 (24%)
Query: 55 GACAV---MALERVPADIRSQGGVARMSDPQLIKEIKQSVT---IPVMAKARI------- 101
GA V +A E + A+ +G M + + K+++ + +M+K I
Sbjct: 662 GATTVNAYLAQEAI-AERHRRGLFGSMPLEKGMANYKKAIDDGLLKIMSKMGISVISSYR 720
Query: 102 GHFVEAQILEAIGID 116
G EAIG+
Sbjct: 721 G----GGNFEAIGLS 731
>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 = 27.9 bits (63), Expect = 3.6
Identities = 7/20 (35%), Positives = 11/20 (55%)
Query: 228 AAGGVATPADAAMMMQLGCD 247
A+GG+ A M++ G D
Sbjct: 180 ASGGIRDLETAISMIEAGAD 199
>1vcf_A Isopentenyl-diphosphate delta-isomerase; TIM barrel, structural
genomics, riken structural genomics/P initiative, RSGI;
HET: FMN; 2.60A {Thermus thermophilus} SCOP: c.1.4.1
PDB: 1vcg_A* 3dh7_A*
Length = 332
Score = 28.0 bits (62), Expect = 3.7
Identities = 14/40 (35%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 219 LGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKS 258
L LP+ A+GGV T D A + LG D + V + +
Sbjct: 254 LPHLPL--VASGGVYTGTDGAKALALGADLLAVARPLLRP 291
>3ffs_A Inosine-5-monophosphate dehydrogenase; beta-alpha barrel, TIM fold,
oxidoreductase; 3.19A {Cryptosporidium parvum}
Length = 400
Score = 28.3 bits (64), Expect = 3.7
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 3/44 (6%)
Query: 211 DLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSG 254
+ + K + V+ G V T +++ G DG+ VG G
Sbjct: 174 RTLKEIKSKMNIDVI---VGNVVTEEATKELIENGADGIKVGIG 214
>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 = 27.9 bits (63), Expect = 3.8
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 228 AAGGVATPADAAMMMQLGCD 247
AAGG+ A M++ G
Sbjct: 181 AAGGIRDRETALRMLKAGAS 200
>2v8h_A Beta-alanine synthase; amidohydrolase, alpha and beta protein,
DI-zinc center, COMP N-carbamyl-beta-alanine, hydrolase;
HET: BCN; 2.0A {Saccharomyces kluyveri} PDB: 2v8d_A*
2vl1_A 2v8g_A 2v8v_A 1r43_A 1r3n_A
Length = 474
Score = 28.0 bits (63), Expect = 3.9
Identities = 14/66 (21%), Positives = 22/66 (33%), Gaps = 7/66 (10%)
Query: 187 DIR-----VLRNMDDD--EVFTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAA 239
D R VL M + F KI L +++ L P V+F + + +A
Sbjct: 319 DFRHPSDDVLATMLKEAAAEFDRLIKINDGGALSYESETLQVSPAVNFHEVCIECVSRSA 378
Query: 240 MMMQLG 245
Sbjct: 379 FAQFKK 384
>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 = 4.0
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 228 AAGGVATPADAAMMMQLGCD 247
A+GG+ T AA M+ G
Sbjct: 195 ASGGIRTAEQAAAMLDAGAT 214
>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 = 27.6 bits (62), Expect = 4.4
Identities = 7/20 (35%), Positives = 10/20 (50%)
Query: 228 AAGGVATPADAAMMMQLGCD 247
AGGV T DA + + +
Sbjct: 203 PAGGVRTAEDAQKYLAIADE 222
>1q08_A Zn(II)-responsive regulator of ZNTA; MERR family transcriptional
regulator; 1.90A {Escherichia coli} SCOP: a.6.1.3 PDB:
1q09_A 1q0a_A
Length = 99
Score = 26.5 bits (58), Expect = 4.5
Identities = 13/59 (22%), Positives = 22/59 (37%), Gaps = 1/59 (1%)
Query: 139 RIPFVCGCRNLGEALRRIREGAAMIRTKGEAGTGNIIE-AVRHVRSVMGDIRVLRNMDD 196
R+ F+ R LG +L IRE ++ ++ V I L++M
Sbjct: 5 RLKFIRHARQLGFSLESIRELLSIRIDPEHHTCQESKGIVQERLQEVEARIAELQSMQR 63
>3n5f_A L-carbamoylase, N-carbamoyl-L-amino acid hydrolase; hinge domain,
M20 peptidase family, evolution, residue, dimerization
domain; 2.75A {Bacillus stearothermophilus}
Length = 408
Score = 27.9 bits (63), Expect = 4.6
Identities = 11/58 (18%), Positives = 22/58 (37%), Gaps = 6/58 (10%)
Query: 187 DIR-----VLRNMDDDEVFTFAKKIAAPYDLVMQTKQLGRLPVVHFAAGGVATPADAA 239
D+R V + + A+ IA ++ + T++L +P V + A
Sbjct: 284 DLRDLKAEVRDQVWK-AIAVRAETIAKERNVRVTTERLQEMPPVLCSDEVKRAAEAAC 340
>3gz3_A Dihydroorotate dehydrogenase, putative; dhodh, oxidoreductase; HET:
FMN ORO; 1.90A {Leishmania major} PDB: 3gye_A*
Length = 354
Score = 27.6 bits (62), Expect = 5.2
Identities = 13/76 (17%), Positives = 23/76 (30%), Gaps = 20/76 (26%)
Query: 217 KQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTHYS 276
++ + GGV T DA + + G V VG+ +
Sbjct: 273 RRCPGKLIF--GCGGVYTGEDAFLHVLAGASMVQVGTAL------------------QEE 312
Query: 277 DPEVLAEVSCGLGEAM 292
P + ++ L M
Sbjct: 313 GPSIFERLTSELLGVM 328
>4dzh_A Amidohydrolase; adenosine deaminase, nysgrc, structural GENO YORK
structural genomics research consortium; 1.55A
{Xanthomonas campestris PV}
Length = 472
Score = 27.9 bits (63), Expect = 5.2
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 4/41 (9%)
Query: 25 SVKVGLAQMLRGGVI----MDVVTPEQARVAEEAGACAVMA 61
+ +A+MLRGG QA V ++ G A++
Sbjct: 120 GTTLAIAEMLRGGTTCVNENYFFADVQAAVYKQHGFRALVG 160
>3khj_A Inosine-5-monophosphate dehydrogenase; enzyme-inhibitor complex,
oxidoreductase; HET: IMP C64; 2.80A {Cryptosporidium
parvum}
Length = 361
Score = 27.6 bits (62), Expect = 5.5
Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 3/44 (6%)
Query: 211 DLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSG 254
+ + K + V+ G V T +++ G DG+ VG G
Sbjct: 135 RTLKEIKSKMNIDVI---VGNVVTEEATKELIENGADGIKVGIG 175
>4f0r_A 5-methylthioadenosine/S-adenosylhomocysteine DEAM; structural
genomics, PSI-biology; HET: MSE MTA; 1.80A
{Chromobacterium violaceum} PDB: 4f0s_A*
Length = 447
Score = 27.5 bits (62), Expect = 6.0
Identities = 8/41 (19%), Positives = 14/41 (34%), Gaps = 4/41 (9%)
Query: 25 SVKVGLAQMLRGGVI----MDVVTPEQARVAEEAGACAVMA 61
+ + +M+RGG M AR +G +
Sbjct: 111 GSLLAMGEMIRGGTTTINDMYFYNAAVARAGLASGMRTFVG 151
>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 = 27.2 bits (61), Expect = 6.0
Identities = 9/20 (45%), Positives = 12/20 (60%)
Query: 228 AAGGVATPADAAMMMQLGCD 247
A+GG+ T DA M+ G D
Sbjct: 221 ASGGIRTFEDAVKMIMYGAD 240
>1h1y_A D-ribulose-5-phosphate 3-epimerase; oxidative pentose phosphate
pathway, isomerase; 1.87A {Oryza sativa} SCOP: c.1.2.2
PDB: 1h1z_A
Length = 228
Score = 27.1 bits (61), Expect = 6.6
Identities = 11/44 (25%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 230 GGVATPADAAMMMQLGCDGVFV-GSGVFKSGDPVKRAQAIVRAV 272
GG+ P+ + G + V GS +F + +P + A+ ++V
Sbjct: 180 GGL-GPSTIDVAASAGAN-CIVAGSSIFGAAEPGEVISALRKSV 221
>1rzu_A Glycogen synthase 1; glycosyl-transferase, GT-B fold, rossmann
fold, ADP-binding, transferase; HET: ADP; 2.30A
{Agrobacterium tumefaciens} SCOP: c.87.1.8 PDB: 1rzv_A
Length = 485
Score = 27.5 bits (62), Expect = 6.8
Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 9/68 (13%)
Query: 220 GRLPVVHFAAGGVA---TPADAAMMMQLGCDGVFVGSGVFKSGDPVKRAQAIVRAVTHYS 276
G +PVV GG+A A+ A + GV F QAI R V +Y
Sbjct: 389 GCIPVVA-RTGGLADTVIDANHAALASKAATGV-----QFSPVTLDGLKQAIRRTVRYYH 442
Query: 277 DPEVLAEV 284
DP++ ++
Sbjct: 443 DPKLWTQM 450
>3m1a_A Putative dehydrogenase; short, PSI, MCSG, structural genomics,
midwest center for structural genomics, protein
structure initiative; 2.00A {Streptomyces avermitilis}
Length = 281
Score = 27.2 bits (61), Expect = 7.0
Identities = 9/20 (45%), Positives = 10/20 (50%)
Query: 259 GDPVKRAQAIVRAVTHYSDP 278
GDP K A AI A+ P
Sbjct: 223 GDPAKAAAAIRLALDTEKTP 242
>3inp_A D-ribulose-phosphate 3-epimerase; IDP02542, isomerase, struc
genomics, center for structural genomics of infectious
DISE csgid; 2.05A {Francisella tularensis subsp}
Length = 246
Score = 27.1 bits (61), Expect = 7.5
Identities = 12/40 (30%), Positives = 18/40 (45%), Gaps = 3/40 (7%)
Query: 230 GGVATPADAAMMMQLGCDGVFV-GSGVFKSGDPVKRAQAI 268
GGV P + A + G + FV GS +F S + +
Sbjct: 202 GGV-NPYNIAEIAVCGVN-AFVAGSAIFNSDSYKQTIDKM 239
>1ps9_A 2,4-dienoyl-COA reductase; iron-sulfur, TIM barrel, flavodoxin,
flavin, electron transfer, hydride transfer,
oxidoreductase; HET: FAD FMN NAP MDE; 2.20A {Escherichia
coli} SCOP: c.1.4.1 c.3.1.1 c.4.1.1
Length = 671
Score = 27.3 bits (61), Expect = 8.0
Identities = 10/37 (27%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 83 LIKEIKQSVTIPVMAKARIGHFVEA-QILEAIGIDYV 118
+ +++K V++P++ RI A IL D V
Sbjct: 271 VTRKLKGHVSLPLVTTNRINDPQVADDILSRGDADMV 307
>1jcn_A Inosine monophosphate dehydrogenase I; IMPD, IMPDH, guanine
nucleotide synthesis, oxidoreductase; HET: CPR; 2.50A
{Homo sapiens} SCOP: c.1.5.1 d.37.1.1 PDB: 1jr1_A*
1nf7_A* 1b3o_A* 1nfb_A*
Length = 514
Score = 27.1 bits (61), Expect = 8.1
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 211 DLVMQTKQLGRLPVVHFAAGGVATPADAAMMMQLGCDGVFVGSG 254
+V KQ + P + G V T A A ++ G DG+ VG G
Sbjct: 285 AMVHYIKQ--KYPHLQVIGGNVVTAAQAKNLIDAGVDGLRVGMG 326
>4dyk_A Amidohydrolase; adenosine deaminase, nysgrc, structural GENO
PSI-biology, NEW YORK structural genomics research
consorti hydrolase; 2.00A {Pseudomonas aeruginosa}
Length = 451
Score = 27.1 bits (61), Expect = 9.5
Identities = 8/41 (19%), Positives = 18/41 (43%), Gaps = 4/41 (9%)
Query: 25 SVKVGLAQMLRGGVI----MDVVTPEQARVAEEAGACAVMA 61
++ +A+ ++GG+ M V ++G A +A
Sbjct: 113 GTELAIAEQVKGGITCFSDMYFYPQAICGVVHDSGVRAQVA 153
>2a4a_A Deoxyribose-phosphate aldolase; lyase, TIM beta/alpha barrel, DEOC,
DERA, structur genomics, structural genomics consortium,
SGC; 1.84A {Plasmodium yoelii yoelii} SCOP: c.1.10.1
Length = 281
Score = 26.6 bits (59), Expect = 10.0
Identities = 4/20 (20%), Positives = 9/20 (45%)
Query: 228 AAGGVATPADAAMMMQLGCD 247
+GG++ A+ + L
Sbjct: 230 VSGGISDLNTASHYILLARR 249
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
0.320 0.135 0.384
Gapped
Lambda K H
0.267 0.0848 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,109,932
Number of extensions: 351917
Number of successful extensions: 1502
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1476
Number of HSP's successfully gapped: 217
Length of query: 310
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 217
Effective length of database: 4,105,140
Effective search space: 890815380
Effective search space used: 890815380
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 57 (25.5 bits)