RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 012098
(471 letters)
>3vab_A Diaminopimelate decarboxylase 1; structural genomics, seattle
structural genomics center for infectious disease,
ssgcid; HET: LLP; 2.10A {Brucella melitensis BV}
Length = 443
Score = 521 bits (1344), Expect = 0.0
Identities = 140/390 (35%), Positives = 217/390 (55%), Gaps = 3/390 (0%)
Query: 72 DGFLYCEDVRVQDVMETVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANNNYK 131
+G L+ E+V + ++ + V PFY+YS+ I R+ + A +++++ YA+KAN+N
Sbjct: 30 NGVLHAENVSLPEIAKAVG-TPFYVYSRATIERHFRVFHDAFADMDTLVTYALKANSNQA 88
Query: 132 ILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGVF-VNVDS 190
+L L KLG GA VS E+R AL AG + +F+G GK ++ A + G++ NV+S
Sbjct: 89 VLTALAKLGAGADTVSQGEIRRALAAGIPANRIVFSGVGKTPREMDFALEAGIYCFNVES 148
Query: 191 EFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKLQWFLDAVK 250
E +LE + + AGK V LRINPDVD + H ++TG +KFGI +K +
Sbjct: 149 EPELEILSARAVAAGKVAPVSLRINPDVDAKTHAKISTGKSENKFGIPRDKARAAYARAA 208
Query: 251 AHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGFEVDYLNIGGGLGIDYY 310
+ P L +VG H+GS I ++ F +A LM + +++A G + ++++GGGLGI Y
Sbjct: 209 SLPG-LNVVGIDMHIGSQIIDLEPFDNAFALMAELVKELQADGHNIRHVDVGGGLGIPYR 267
Query: 311 HTGAVLPKPRNLIDTVRELVLSRNLNLIIEPGRSLIANTCCLVNHVTGVKTNGTKNFIVI 370
P P V + + L + EPGR ++ N LV V VK KNF+++
Sbjct: 268 TPNTPPPPPVAYAQIVAKHIKPLGLKTVFEPGRLIVGNAGLLVTEVIFVKEGDAKNFVIV 327
Query: 371 DGSMAELIRPSLYDAYQHIELVSPAPQDAEISKFDVVGPVCESADFLGKERELPTPDRGA 430
D +M +LIRP+LYDA+ I V +A + D VGPVCE+ D+LG +RE+ P G
Sbjct: 328 DAAMNDLIRPTLYDAFHDIRPVIMPNDNAPRIRADFVGPVCETGDYLGLDREVAKPAPGD 387
Query: 431 GLVVHDAGAYCMSMASTYNLKMRPPEYWVR 460
+ + GAY ++STYN ++ PE
Sbjct: 388 LIAICTTGAYGAVLSSTYNSRLLIPEVLGD 417
>2qgh_A Diaminopimelate decarboxylase; lyase; HET: PLP LYS; 2.30A
{Helicobacter pylori} PDB: 3c5q_A*
Length = 425
Score = 515 bits (1330), Expect = 0.0
Identities = 127/399 (31%), Positives = 212/399 (53%), Gaps = 8/399 (2%)
Query: 65 HCFSKKADGFLY--CEDVRVQDVMETVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGY 122
H + G + +++ +T + PFYLY +I + YK+A +G S+I Y
Sbjct: 5 HHHHHHSSGLVPRGSHMFNYEELFQTHK-TPFYLYDFDKIKQAFLNYKEAFKGRKSLICY 63
Query: 123 AIKANNNYKILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQE 182
A+KAN+N IL L L GA VS E++ AL+AG P + +F+G GK ++ A +
Sbjct: 64 ALKANSNLSILSLLAHLESGADCVSIGEIQRALKAGIKPYRIVFSGVGKSAFEIEQALKL 123
Query: 183 GVF-VNVDSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEK 241
+ +NV+S +L+ I ++ G K + +RINP++D + HPY++TG K +KFG+ ++
Sbjct: 124 NILFLNVESFMELKTIETIAQSLGIKARISIRINPNIDAKTHPYISTGLKENKFGVGEKE 183
Query: 242 LQWFLDAVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGFEVDYLNI 301
K L+ V H H+GS + ++ +A+ + + A G ++ + ++
Sbjct: 184 ALEMFLWAKKSAF-LEPVSVHFHIGSQLLDLEPIIEASQKVAKIAKSLIALGIDLRFFDV 242
Query: 302 GGGLGIDYYHTGAVLPKPRNLIDTVRELVLSRNLNLIIEPGRSLIANTCCLVNHVTGVKT 361
GGG+G+ Y + K + + + +L +I EPGRS++A + L+ V K
Sbjct: 243 GGGIGVSYENEET--IKLYDYAQGILNALQGLDLTIICEPGRSIVAESGELITQVLYEKK 300
Query: 362 NGTKNFIVIDGSMAELIRPSLYDAYQHIELVSPAPQDAEISKFDVVGPVCESADFLGKER 421
K F+++D M + +RPSLY A I +++P+ + EIS DVVGPVCES+D K+
Sbjct: 301 AQNKRFVIVDAGMNDFLRPSLYHAKHAIRVITPS-KGREISPCDVVGPVCESSDTFLKDA 359
Query: 422 ELPTPDRGAGLVVHDAGAYCMSMASTYNLKMRPPEYWVR 460
LP + G + + GAY SMAS YN + + E +
Sbjct: 360 HLPELEPGDKIAIEKVGAYGSSMASQYNSRPKLLELALE 398
>3n2b_A Diaminopimelate decarboxylase; LYSA, lyase, structural genom center
for structural genomics of infectious diseases, CSGI;
1.80A {Vibrio cholerae}
Length = 441
Score = 510 bits (1316), Expect = e-180
Identities = 149/398 (37%), Positives = 228/398 (57%), Gaps = 9/398 (2%)
Query: 65 HCFSKKADGFLYCEDVRVQDVMETVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAI 124
F+ + DG L+ E V + D+ P Y+YS+ + R+ A+ +++ +I YA+
Sbjct: 26 DYFNYQEDGQLWAEQVPLADLANQYG-TPLYVYSRATLERHWHAFDKSVGDYPHLICYAV 84
Query: 125 KANNNYKILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGV 184
KAN+N +L L +LG G +VS EL L AG DP+K +F+G GK ++ A Q +
Sbjct: 85 KANSNLGVLNTLARLGSGFDIVSVGELERVLAAGGDPSKVVFSGVGKTEAEMKRALQLKI 144
Query: 185 F-VNVDSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKLQ 243
NV+SE +L+ + + G K + LRINPDVD + HPY++TG +++KFGI ++
Sbjct: 145 KCFNVESEPELQRLNKVAGELGVKAPISLRINPDVDAKTHPYISTGLRDNKFGITFDRAA 204
Query: 244 WFLDAVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGFEVDYLNIGG 303
+ PN L + G CH+GS +T + F DA ++ ID ++A+G + +L++GG
Sbjct: 205 QVYRLAHSLPN-LDVHGIDCHIGSQLTALAPFIDATDRLLALIDSLKAEGIHIRHLDVGG 263
Query: 304 GLGIDYYHTGAVLPKPRNLIDTVRE-LVLSRNLNLIIEPGRSLIANTCCLVNHVTGVKTN 362
GLG+ Y + P+P + + L R+L LI EPGR++ AN LV V +K
Sbjct: 264 GLGVVY--RDELPPQPSEYAKALLDRLERHRDLELIFEPGRAIAANAGVLVTKVEFLKHT 321
Query: 363 GTKNFIVIDGSMAELIRPSLYDAYQHIELVSPAPQDAEISKFDVVGPVCESADFLGKERE 422
KNF +ID +M +LIRP+LY A+Q I + P+ E +D+VGPVCE++DFLGK+R+
Sbjct: 322 EHKNFAIIDAAMNDLIRPALYQAWQDIIPLR--PRQGEAQTYDLVGPVCETSDFLGKDRD 379
Query: 423 LPTPDRGAGLVVHDAGAYCMSMASTYNLKMRPPEYWVR 460
L G L V +GAY +M+S YN + R E V
Sbjct: 380 LVLQ-EGDLLAVRSSGAYGFTMSSNYNTRPRVAEVMVD 416
>2p3e_A Diaminopimelate decarboxylase; southeast collaboratory for struct
genomics, riken spring-8 center; 1.99A {Aquifex
aeolicus}
Length = 420
Score = 500 bits (1289), Expect = e-176
Identities = 150/390 (38%), Positives = 235/390 (60%), Gaps = 8/390 (2%)
Query: 72 DGFLYCEDVRVQDVMETVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANNNYK 131
DG L+ E V ++++ +T P Y+YS I EAY++A +++I YA+KAN N
Sbjct: 15 DGELFIEGVSLKELAQTFG-TPLYVYSSNFIKERFEAYRKAFP--DALICYAVKANFNPH 71
Query: 132 ILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGVF-VNVDS 190
+++ L +LG GA +VSG EL LA +AG P + ++ G GK ++L A + NV+S
Sbjct: 72 LVKLLGELGAGADIVSGGELYLAKKAGIPPERIVYAGVGKTEKELTDAVDSEILMFNVES 131
Query: 191 EFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKLQWFLDAVK 250
+L+ + + GKK + +R+NPDVDP+ HPY+ATG + SKFG+ + Q +
Sbjct: 132 RQELDVLNEIAGKLGKKARIAIRVNPDVDPKTHPYIATGMQKSKFGVDIREAQKEYEYAS 191
Query: 251 AHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGFEVDYLNIGGGLGIDYY 310
N L++VG HCH+GS I + +R+A +V+ + + +GF++ YL+IGGGLGI Y
Sbjct: 192 KLEN-LEIVGIHCHIGSQILDISPYREAVEKVVSLYESLTQKGFDIKYLDIGGGLGIKYK 250
Query: 311 HTGAVLPKPRNLIDTVRELVLSRNLNLIIEPGRSLIANTCCLVNHVTGVKTNGTKNFIVI 370
P P++L D +++L+ + +I+EPGRS++ N L+ V +K G+K+FI++
Sbjct: 251 PEDKE-PAPQDLADLLKDLLENVKAKIILEPGRSIMGNAGILITQVQFLKDKGSKHFIIV 309
Query: 371 DGSMAELIRPSLYDAYQHIELVSPAPQDAEISKFDVVGPVCESADFLGKERELPTPDRGA 430
D M +LIRPS+Y+AY HI V ++ + D+VGP+CE+ DFL +RE+ RG
Sbjct: 310 DAGMNDLIRPSIYNAYHHIIPVE--TKERKKVVADIVGPICETGDFLALDREIEEVQRGE 367
Query: 431 GLVVHDAGAYCMSMASTYNLKMRPPEYWVR 460
L V AGAY +M+S YN++ R E V
Sbjct: 368 YLAVLSAGAYGFAMSSHYNMRPRAAEVLVE 397
>2yxx_A Diaminopimelate decarboxylase; TM1517, TIM beta/alpha barrel fold,
lyase, structural genomi NPPSFA; HET: PLP; 1.70A
{Thermotoga maritima}
Length = 386
Score = 460 bits (1185), Expect = e-161
Identities = 128/369 (34%), Positives = 198/369 (53%), Gaps = 20/369 (5%)
Query: 93 PFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANNNYKILEHLRKLGCGAVLVSGNELR 152
P Y+Y + + + K+ EG+N + +A+KANNN +L+ LR+ G G +V+ EL
Sbjct: 14 PTYVYFEETLRKRSRLVKEVFEGVNLLPTFAVKANNNPVLLKILREEGFGMDVVTKGELL 73
Query: 153 LALRAGFDPTKCIFNGNGKLLEDLVLAAQEGVF-VNVDSEFDLENIVVASRIAGKKVNVL 211
A AG ++NGNGK + + +E V VNVDS ++E + + V
Sbjct: 74 AAKLAGVPSHTVVWNGNGKSRDQMEHFLREDVRIVNVDSFEEMEIW---RELNPEGVEYF 130
Query: 212 LRINPDVDPQVHPYVATGNKNSKFGIRNEKLQWFLDAVKAHPNELKLVGAHCHLGSTITK 271
+R+NP+VD + HP+++TG K KFGI E L F++ + + + G H H+GS IT+
Sbjct: 131 IRVNPEVDAKTHPHISTGLKKHKFGIPLEDLDSFMERFR----SMNIRGLHVHIGSQITR 186
Query: 272 VDIFRDAAVLMVNYIDKIRAQGFEVDYLNIGGGLGIDYYHTGAVLPKPRNLIDTVRELVL 331
V+ F +A +V ++ + + +NIGGG GI+Y + + V L
Sbjct: 187 VEPFVEAFSKVVR-----ASERYGFEEINIGGGWGINYSGEE---LDLSSYREKVVP-DL 237
Query: 332 SRNLNLIIEPGRSLIANTCCLVNHVTGVKTNGTKNFIVIDGSMAELIRPSLYDAYQHIEL 391
R +I+E GR ++A + L+ V VK K F+V+DG M LIRP+LY AY I +
Sbjct: 238 KRFKRVIVEIGRYIVAPSGYLLLRVVLVKRRHNKAFVVVDGGMNVLIRPALYSAYHRIFV 297
Query: 392 VSPAPQDAEISKFDVVGPVCESADFLGKERELPTPDRGAGLVVHDAGAYCMSMASTYNLK 451
+ + + DVVGP+CES D + +RELP + G + V +AGAY +M++ YN
Sbjct: 298 LGK---QGKEMRADVVGPLCESGDVIAYDRELPEVEPGDIIAVENAGAYGYTMSNNYNST 354
Query: 452 MRPPEYWVR 460
RP E VR
Sbjct: 355 TRPAEVLVR 363
>1twi_A Diaminopimelate decarboxylase; antibiotic resistance, lysine
biosynthesis, structural genomics, NYSGXRC, PSI; HET:
LYS PLP; 2.00A {Methanocaldococcus jannaschii} SCOP:
b.49.2.3 c.1.6.1 PDB: 1tuf_A*
Length = 434
Score = 423 bits (1091), Expect = e-146
Identities = 137/407 (33%), Positives = 215/407 (52%), Gaps = 28/407 (6%)
Query: 72 DGFLYCEDVRVQDVMETVEKRPFYLYSKPQITRNVEAYKQALE------GLNSIIGYAIK 125
DG + + ++ E P Y+ S+ QI N Y +A + G I+ YA K
Sbjct: 11 DGRFFIDGYDAIELAEKF-GTPLYVMSEEQIKINYNRYIEAFKRWEEETGKEFIVAYAYK 69
Query: 126 ANNNYKILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGVF 185
AN N I L KLGCGA +VSG EL +A + K +FNGN K E++++ + +
Sbjct: 70 ANANLAITRLLAKLGCGADVVSGGELYIAKLSNVPSKKIVFNGNCKTKEEIIMGIEANIR 129
Query: 186 -VNVDSEFDLENIVVASRIA---GKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEK 241
NVDS +L I + A G+ NV RINP+V+P+ HP ++TG K +KFG+ E
Sbjct: 130 AFNVDSISELILI---NETAKELGETANVAFRINPNVNPKTHPKISTGLKKNKFGLDVES 186
Query: 242 LQWFLDAVK---AHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGFEVDY 298
+ A+K + +VG HCH+GS +T + F + +++++ +++ +G E++
Sbjct: 187 GI-AMKAIKMALEMEY-VNVVGVHCHIGSQLTDISPFIEETRKVMDFVVELKEEGIEIED 244
Query: 299 LNIGGGLGIDYYHTGAVLPKPRNLIDTVRELVLSRN-----LNLIIEPGRSLIANTCCLV 353
+N+GGGLGI YY +P ++L D + +L NLI+EPGRSL+A L+
Sbjct: 245 VNLGGGLGIPYYK-DKQIPTQKDLADAIINTMLKYKDKVEMPNLILEPGRSLVATAGYLL 303
Query: 354 NHVTGVKTNGTKNFIVIDGSMAELIRPSLYDAYQHIELVSPAPQDAEISKFDVVGPVCES 413
V +K +++ID M +++RP++Y+AY HI E + G +CES
Sbjct: 304 GKVHHIKETPVTKWVMIDAGMNDMMRPAMYEAYHHIINCKV---KNEKEVVSIAGGLCES 360
Query: 414 ADFLGKERELPTPDRGAGLVVHDAGAYCMSMASTYNLKMRPPEYWVR 460
+D G++REL + G L + D GAY +SMA+ YN + RP
Sbjct: 361 SDVFGRDRELDKVEVGDVLAIFDVGAYGISMANNYNARGRPRMVLTS 407
>2j66_A BTRK, decarboxylase; butirosin, AHBA biosynthesis, lyase; HET: PLP;
1.65A {Bacillus circulans}
Length = 428
Score = 395 bits (1017), Expect = e-135
Identities = 100/404 (24%), Positives = 162/404 (40%), Gaps = 26/404 (6%)
Query: 75 LYCEDVRVQDVMETVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANNNYKILE 134
+ + + + + + PFYLY I + + ++KANNN + +
Sbjct: 1 MNLDQAEITALTKRF-ETPFYLYDGDFIEAHYRQLRSRTNP-AIQFYLSLKANNNIHLAK 58
Query: 135 HLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGVF-VNVDSEFD 193
R+ G G + S EL LA AGF IF+G GK +L +A Q G++ + +S +
Sbjct: 59 LFRQWGLGVEVASAGELALARHAGFSAENIIFSGPGKKRSELEIAVQSGIYCIIAESVEE 118
Query: 194 LENIVVASRIA---GKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKLQWFLDAVK 250
L I +A K V +RINPD + G +FG+ L +DAV+
Sbjct: 119 LFYI---EELAEKENKTARVAIRINPDKSFGST-AIKMGGVPRQFGMDESMLDAVMDAVR 174
Query: 251 AHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQ-GFEVDYLNIGGGLGIDY 309
+ K +G H + G+ D ++ V+ I + G + +N+GGG G+ Y
Sbjct: 175 SLQF-TKFIGIHVYTGTQNLNTDSIIESMKYTVDLGRNIYERYGIVCECINLGGGFGVPY 233
Query: 310 YHTGAVLPKPRNLIDTVRELV------LSRNLNLIIEPGRSLIANTCCLVNHVTGVKTNG 363
+ + TV + V IIE GR L+A V V K +
Sbjct: 234 -FSHEKALDIGKITRTVSDYVQEARDTRFPQTTFIIESGRYLLAQAAVYVTEVLYRKASK 292
Query: 364 TKNFIVIDGSMAELIRPSLYDA------YQHIELVSPAPQDAEISKFDVVGPVCESADFL 417
+ F+++DG M + V E+ K + GP+C D L
Sbjct: 293 GEVFVIVDGGMHHHAASTFRGRSMRSNYPMEYIPVREDSGRRELEKVTIAGPLCTPEDCL 352
Query: 418 GKERELPTPDRGAGLVVHDAGAYCMSMAST-YNLKMRPPEYWVR 460
GK+ +P G + V ++GAY +S + + P E R
Sbjct: 353 GKDVHVPALYPGDLVCVLNSGAYGLSFSPVHFLGHPTPIEILKR 396
>1knw_A Diaminopimelate decarboxylase; pyridoxal-phosphate,
decarboxylation, lysin barrel, lyase; HET: PLP MES;
2.10A {Escherichia coli} SCOP: b.49.2.3 c.1.6.1 PDB:
1ko0_A*
Length = 425
Score = 394 bits (1015), Expect = e-135
Identities = 113/409 (27%), Positives = 186/409 (45%), Gaps = 37/409 (9%)
Query: 67 FSKKADGFLYCEDVRVQDVMETVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKA 126
D L E++ + P ++Y I R + A KQ ++ +A KA
Sbjct: 4 SLFSTDTDLTAENLL--RLPAEF-GCPVWVYDAQIIRRQIAALKQF-----DVVRFAQKA 55
Query: 127 NNNYKILEHLRKLGCGAVLVSGNELRLALRAGFDPTKC----IFNGNGKLLEDLVLAAQE 182
+N IL +R+ G VS E+ AL AG++P +F + L ++
Sbjct: 56 CSNIHILRLMREQGVKVDSVSLGEIERALAAGYNPQTHPDDIVFTADVIDQATLERVSEL 115
Query: 183 GVFVNVDSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKL 242
+ VN S L+ + +++ V LR+NP TG +NSK GI L
Sbjct: 116 QIPVNAGSVDMLDQL---GQVS-PGHRVWLRVNPGFGHGHSQKTNTGGENSKHGIWYTDL 171
Query: 243 QWFLDAVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGFEVDYLNIG 302
LD ++ + L+LVG H H+GS + + + + + ++ G ++ ++ G
Sbjct: 172 PAALDVIQ-RHH-LQLVGIHMHIGSGVDYAHLEQVCGAM----VRQVIEFGQDLQAISAG 225
Query: 303 GGLGIDYYHTGAVLPKPR--NLIDTVRELV---LSRNLNLIIEPGRSLIANTCCLVNHVT 357
GGL + Y + L + RE + L + L IEPGR L+A + L+ V
Sbjct: 226 GGLSVPYQQGEEAVDTEHYYGLWNAAREQIARHLGHPVKLEIEPGRFLVAQSGVLITQVR 285
Query: 358 GVKTNGTKNFIVIDGSMAELIRPSLYDAYQHIELVSP---APQDAEISKFDVVGPVCESA 414
VK G+++F+++D +L+RP++Y +Y HI ++ + + A + V GP+CES
Sbjct: 286 SVKQMGSRHFVLVDAGFNDLMRPAMYGSYHHISALAADGRSLEHAPTVETVVAGPLCESG 345
Query: 415 DFLGKE-------RELPTPDRGAGLVVHDAGAYCMSMASTYNLKMRPPE 456
D ++ R LP G LV+HD GAY SM+S YN + PE
Sbjct: 346 DVFTQQEGGNVETRALPEVKAGDYLVLHDTGAYGASMSSNYNSRPLLPE 394
>2o0t_A Diaminopimelate decarboxylase; PLP binding enzyme, lysine
biosynthesis, STRU genomics, TB structural genomics
consortium, TBSGC; HET: LLP; 2.33A {Mycobacterium
tuberculosis} PDB: 1hkv_A* 1hkw_A
Length = 467
Score = 388 bits (999), Expect = e-132
Identities = 107/410 (26%), Positives = 185/410 (45%), Gaps = 24/410 (5%)
Query: 71 ADGFLYCEDVRVQDVMETVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANNNY 130
G + + + + + P ++ + A G + + YA KA
Sbjct: 22 EVGVVCIAGIPLTQLAQEY-GTPLFVIDEDDFRSRCRETAAAF-GSGANVHYAAKAFLCS 79
Query: 131 KILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGVF-VNVD 189
++ + + G + +G EL +AL A F P + +GN K + +L A + GV + VD
Sbjct: 80 EVARWISEEGLCLDVCTGGELAVALHASFPPERITLHGNNKSVSELTAAVKAGVGHIVVD 139
Query: 190 SEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGI--RNEKLQWFLD 247
S ++E + + AG +VL+R+ V+ H +++T +++ KFG+ + +
Sbjct: 140 SMTEIERLDAIAGEAGIVQDVLVRLTVGVEAHTHEFISTAHEDQKFGLSVASGAAMAAVR 199
Query: 248 AVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQ-----GFEVDYLNIG 302
V A + L+LVG H H+GS I VD F AA ++ + + + ++ +++G
Sbjct: 200 RVFATDH-LRLVGLHSHIGSQIFDVDGFELAAHRVIGLLRDVVGEFGPEKTAQIATVDLG 258
Query: 303 GGLGIDYYHTGAVLPKP---RNLIDTVRELVLSRNLN---LIIEPGRSLIANTCCLVNHV 356
GGLGI Y + P L V + + L L++EPGR++ + V
Sbjct: 259 GGLGISYLPSDDPPPIAELAAKLGTIVSDESTAVGLPTPKLVVEPGRAIAGPGTITLYEV 318
Query: 357 TGVK-----TNGTKNFIVIDGSMAELIRPSLYDAYQHIELVSPAPQDAEISKFDVVGPVC 411
VK + ++ +DG M++ IR +LY A + LVS DA +VG C
Sbjct: 319 GTVKDVDVSATAHRRYVSVDGGMSDNIRTALYGAQYDVRLVSR-VSDAPPVPARLVGKHC 377
Query: 412 ESADFLGKERELPTP-DRGAGLVVHDAGAYCMSMASTYNLKMRPPEYWVR 460
ES D + ++ +P G + V GAYC S++S YN+ RP V
Sbjct: 378 ESGDIIVRDTWVPDDIRPGDLVAVAATGAYCYSLSSRYNMVGRPAVVAVH 427
>3mt1_A Putative carboxynorspermidine decarboxylase prote; PSI2, MCSG,
structural genomics; 2.50A {Sinorhizobium meliloti}
Length = 365
Score = 366 bits (941), Expect = e-124
Identities = 65/369 (17%), Positives = 115/369 (31%), Gaps = 28/369 (7%)
Query: 93 PFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANNNYKILEHLRKLGCGAVLVSGNELR 152
P+YL K ++TRN+E E + A+K + + + +R G S E+R
Sbjct: 5 PYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFATWSVFDLMRDYMDGTTSSSLFEVR 64
Query: 153 LALRAGFDPTKCIFNGNGKLLEDLVLAAQEGVFVNVDSEFDLENIVVASRIAGKKVNVLL 212
L T G ++ + +S LE + L
Sbjct: 65 LGRERFGKETHAYSVAYGD--NEIDEVVSHADKIIFNSISQLERF----ADKAAGIARGL 118
Query: 213 RINPDVDPQVHPYVATGNKNSKFGIRNEKLQWFLDAVKAHPNELKLVGAHCHLGSTITKV 272
R+NP V S+ G W + V+ + ++ G H
Sbjct: 119 RLNPQVSSSSFDLADPARPFSRLGE------WDVPKVERVMD--RINGFMIHNNCENKDF 170
Query: 273 DIFRDAAVLMVNYIDKIRAQGFEVDYLNIGGGLGIDYYHTGAVLPKPRNLIDTVRELVLS 332
+F + ++ A VD++++GGG+ +R
Sbjct: 171 GLFDRM---LGEIEERFGALIARVDWVSLGGGIHFTGDD-----YPVDAFSARLRAFSDR 222
Query: 333 RNLNLIIEPGRSLIANTCCLVNHVTGVKTNGTKNFIVIDGSMAELIRPSLYDAYQHIELV 392
+ + +EPG + I + L V NG IV A ++ +Y +
Sbjct: 223 YGVQIYLEPGEASITKSTTLEVTVLDTLYNGKNLAIVDSSIEAHMLDLLIYRETAKVL-- 280
Query: 393 SPAPQDAEISKFDVVGPVCESADFLGKERELPTPDRGAGLVVHDAGAYCMSMASTYNLKM 452
+ + + G C + D G+ R G + DA Y M + +N
Sbjct: 281 ----PNEGSHSYMICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVK 336
Query: 453 RPPEYWVRS 461
P
Sbjct: 337 MPAIAIREL 345
>3n29_A Carboxynorspermidine decarboxylase; lyase; HET: PLP; 1.90A
{Campylobacter jejuni subsp}
Length = 418
Score = 329 bits (845), Expect = e-109
Identities = 62/416 (14%), Positives = 131/416 (31%), Gaps = 35/416 (8%)
Query: 57 QTHTAPVEHCFSKKADGFLYCEDVRVQDVMETVEK--RPFYLYSKPQITRNVEAYKQALE 114
H + LY +D + EK P Y+ + ++ +N E E
Sbjct: 8 HHHGMASMTGGQQM-GRDLYDDDDKDHPFTMFYEKIQTPAYILEEDKLRKNCELLASVGE 66
Query: 115 GLNSIIGYAIKANNNYKILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLE 174
+ + A+K ++ + + G E + A + D ++ K +
Sbjct: 67 KSGAKVLLALKGFAFSGAMKIVGEYLKGCTCSGLWEAKFA-KEYMDKEIHTYSPAFKE-D 124
Query: 175 DLVLAAQEGVFVNVDSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSK 234
++ A + +S + +K ++ LR N + + S+
Sbjct: 125 EIGEIASLSHHIVFNSLAQFHKF----QSKTQKNSLGLRCNVEFSLAPKELYNPCGRYSR 180
Query: 235 FGIRNEKLQWFLDAVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGF 294
GIR + + + + + G H H + + ++ + +K
Sbjct: 181 LGIRAKDFE--------NVDLNAIEGLHFHALCEESADALEA----VLKVFEEKFGKWIG 228
Query: 295 EVDYLNIGGGLGIDYYHTGAVLPKPRNLIDTVRELVLSRNLNLIIEPGRSLIANTCCLVN 354
++ ++N GGG I LI + + + +EPG ++ T LV
Sbjct: 229 QMKWVNFGGGHHITKKG-----YDVEKLIALCKNFSDKYGVQVYLEPGEAVGWQTGNLVA 283
Query: 355 HVTGVKTNGTKNFIVIDGSMAELIRPSLYDAYQHI---------ELVSPAPQDAEISKFD 405
V + N + I+ S A + + + E + +
Sbjct: 284 SVVDIIENEKQIAILDTSSEAHMPDTIIMPYTSEVLNARILATRENEKISDLKENEFAYL 343
Query: 406 VVGPVCESADFLGKERELPTPDRGAGLVVHDAGAYCMSMASTYNLKMRPPEYWVRS 461
+ G C + D +G+ G +V D Y + +T+N P +
Sbjct: 344 LTGNTCLAGDVMGEYAFDKKLKIGDKIVFLDQIHYTIVKNTTFNGIRLPNLMLLDH 399
>2plj_A Lysine/ornithine decarboxylase; type IV decarboxylase, beta/alpha
barrel, beta barrel, lyase; HET: P3T; 1.70A {Vibrio
vulnificus} PDB: 2plk_A*
Length = 419
Score = 301 bits (772), Expect = 2e-98
Identities = 79/414 (19%), Positives = 156/414 (37%), Gaps = 24/414 (5%)
Query: 58 THTAPVEHCFSKKADGFLYCEDVRVQDVMETVEKRPFYLYSKPQITRNVEAYKQALEGLN 117
H+ + S L E++ + + P L I + A K AL +
Sbjct: 22 AHSQSIFDIHSLT-SPVLSAEEIHLIEASVEQFGAPLLLLDCDVIRQQYRALKNALPNVT 80
Query: 118 SIIGYAIKANNNYKILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLV 177
+ YA+K + ++ L G L + E+ L G I K D+
Sbjct: 81 --LHYALKPLPHPVVVRTLLAEGASFDLATTGEVELVASEGVPADLTIHTHPIKRDADIR 138
Query: 178 LAAQEGVFV-NVDSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFG 236
A G V VD+ +LE V +L+R++ + + + KFG
Sbjct: 139 DALAYGCNVFVVDNLNELEKF---KAYR-DDVELLVRLSFR-NSEAFAD-----LSKKFG 188
Query: 237 IRNEKLQWFLDAVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGF-E 295
E+ ++ K +++ G H+GS T + + +A + ++++ +G
Sbjct: 189 CSPEQALVIIETAKEW--NIRIKGLSFHVGSQTTNPNKYVEAIHTCRHVMEQVVERGLPA 246
Query: 296 VDYLNIGGGLGIDYYHTGAVLPKPRNLIDTVRELV--LSRNLNLIIEPGRSLIANTCCLV 353
+ L+IGGG ++Y + + E + L ++++ EPGR + A V
Sbjct: 247 LSTLDIGGGFPVNY---TQQVMPIDQFCAPINEALSLLPETVHVLAEPGRFICAPAVTSV 303
Query: 354 NHVTGVKTNGTKNFIVIDGSMAELIRPSLYDAYQHIELVSPAPQDAEISKFDVVGPVCES 413
V G + + +D + ++D ++ ++ Q E+ + GP C+S
Sbjct: 304 ASVMGQAEREGQIWYYLDDGIYGSFSGLMFDDARYP--LTTIKQGGELIPSVLSGPTCDS 361
Query: 414 ADFLGKERELPTPDRGAGLVVHDAGAYCMSMASTYNLKMRPPEYWVRSLISIII 467
D + + LP + G ++ GAY + A+ +N R + ++
Sbjct: 362 VDVIAENILLPKLNNGDLVIGRTMGAYTSATATDFNFFKRAQTIALNEFVASSE 415
>3btn_A Antizyme inhibitor 1; TIM-like A/B barrel domain and A sheet
domain, structural genomics, israel structural
proteomics center, ISPC; 2.05A {Mus musculus}
Length = 448
Score = 301 bits (774), Expect = 3e-98
Identities = 84/414 (20%), Positives = 152/414 (36%), Gaps = 40/414 (9%)
Query: 72 DGFLYCEDVRVQDVMETV-------EKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAI 124
L E + +V++ K F++ +I + ++ + + Y +
Sbjct: 11 SVGLLDEGTNLGNVIDNYVYEHTLTGKNAFFVGDLGKIVKKHSQWQTVVAQIK--PFYTV 68
Query: 125 KANNNYKILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGV 184
K N+ +LE L LG G S NE+ L G P IF K + + AA+ GV
Sbjct: 69 KCNSTPAVLEILAALGTGFACSSKNEMALVQELGVSPENIIFTSPCKQVSQIKYAAKVGV 128
Query: 185 -FVNVDSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKLQ 243
+ D+E +L+ I +R VLL I + + N KFG + +
Sbjct: 129 NIMTCDNEIELKKI---ARNH-PNAKVLLHIAT------EDNIGGEDGNMKFGTTLKNCR 178
Query: 244 WFLDAVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGFEVDYLNIGG 303
L+ K +++++G H+ S + ++ A D GF ++ L+IGG
Sbjct: 179 HLLECAKE--LDVQIIGVKFHVSSACKEYQVYVHALSDARCVFDMAGEFGFTMNMLDIGG 236
Query: 304 GLGIDYYHTGAVLPKPRNLIDTVRELVLSRNLNLIIEPGRSLIANTCCLVNHVTGVKTNG 363
G V L+D + +I EPG +++ L ++ K
Sbjct: 237 GFTGTEIQLEEVNHVISPLLD--IYFPEGSGIQIISEPGSYYVSSAFTLAVNIIAKKVVE 294
Query: 364 TKNFIVI-------DGSMAELIRPSLYDAYQ---------HIELVSPAPQDAEISKFDVV 407
F + + + +Y ++ E+ +D + +
Sbjct: 295 NDKFSSGVEKNGSDEPAFVYYMNDGVYGSFASKLSEDLNTIPEVHKKYKEDEPLFTSSLW 354
Query: 408 GPVCESADFLGKERELPTPDRGAGLVVHDAGAYCMSMASTYNLKMRPPEYWVRS 461
GP C+ D + + LP + G L+ + GA S +N RP Y++ S
Sbjct: 355 GPSCDELDQIVESCLLPELNVGDWLIFDNMGADSFHEPSAFNDFQRPAIYFMMS 408
>2nva_A Arginine decarboxylase, A207R protein; PLP, TIM barrel, eukaryotic
ODC- like, lyase; HET: PL2; 1.80A {Paramecium bursaria
chlorella virus 1} PDB: 2nv9_A*
Length = 372
Score = 286 bits (735), Expect = 2e-93
Identities = 77/388 (19%), Positives = 153/388 (39%), Gaps = 24/388 (6%)
Query: 79 DVRVQDVME--TVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANNNYKILEHL 136
+ V ++++ + + FY+ S + ++ + + YA+K NN+ +L+ +
Sbjct: 2 NSVVNNILKAHPHQTKSFYVSSPKIVEDLIDQWTILFPRVT--PHYAVKCNNDEVLLKTM 59
Query: 137 RKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGVFV-NVDSEFDLE 195
S +E++ ++ G P++ IF K ++DL+ A +GV + DS F+L+
Sbjct: 60 CDKNVNFDCASSSEIKKVIQIGVSPSRIIFAHTMKTIDDLIFAKDQGVDIATFDSSFELD 119
Query: 196 NIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKLQWFLDAVKAHPNE 255
I ++LRI D AT +KFG ++++ L+ K +
Sbjct: 120 KI---HTYH-PNCKMILRIRCDDPN------ATVQLGNKFGANEDEIRHLLEYAKQL--D 167
Query: 256 LKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGFEVDYLNIGGGLGIDYYHTGAV 315
++++G H+GS + + A ++ + G + L+IGGGL D
Sbjct: 168 IEVIGISFHVGSGSRNPEAYYRAIKSSKEAFNEAISVGHKPYILDIGGGLHADIDEGELS 227
Query: 316 LPKPRNLIDTVRELVLSRNLNLIIEPGRSLIANTCCLVNHVTGVKTNGTKNFIVID---- 371
+ D +++ + ++ EPGR + L V G + +
Sbjct: 228 TYMSDYINDAIKDFFPEDTVTIVAEPGRFFAEHYSVLATQVIGKRVRDGLYEYFFNESTY 287
Query: 372 GSMAELIRPSLYDAYQHIELVSPAPQDAEISKFDVVGPVCESADFLGKERELPTPDRGAG 431
G + +I Q L+ P D E + G C+ D + LP G
Sbjct: 288 GGFSNVIFEKSVPTPQ---LLRDVPDDEEYVPSVLYGCTCDGVDVINHNVALPELHIGDW 344
Query: 432 LVVHDAGAYCMSMASTYNLKMRPPEYWV 459
+ GAY + +++N Y++
Sbjct: 345 VYFPSWGAYTNVLTTSFNGFGEYDVYYI 372
>1f3t_A ODC, ornithine decarboxylase; beta-alpha-barrel, modified greek KEY
beta-sheet, lyase; HET: PLP; 2.00A {Trypanosoma brucei}
SCOP: b.49.2.3 c.1.6.1 PDB: 1qu4_A* 1szr_C* 2tod_A*
1njj_A*
Length = 425
Score = 281 bits (720), Expect = 2e-90
Identities = 89/411 (21%), Positives = 152/411 (36%), Gaps = 42/411 (10%)
Query: 72 DGFLYCEDVRVQDVMETVEKR--PFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANNN 129
+GF D + + PF++ I R E +K+ L + YA+K N++
Sbjct: 17 EGFNT-RDALCKKISMNTCDEGDPFFVADLGDIVRKHETWKKCLPRVT--PFYAVKCNDD 73
Query: 130 YKILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGVF-VNV 188
+++L L LG G S E++ G P K I+ K + + A GV +
Sbjct: 74 WRVLGTLAALGTGFDCASNTEIQRVRGIGVPPEKIIYANPCKQISHIRYARDSGVDVMTF 133
Query: 189 DSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKLQWFLDA 248
D +LE + ++ K ++LRI+ D D ++ KFG + E ++ L+
Sbjct: 134 DCVDELEKV---AKTH-PKAKMVLRISTD-DSLARCRLSV-----KFGAKVEDCRFILEQ 183
Query: 249 VKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGFEVDYLNIGGGLGID 308
K + + G H+GS T F A D GF + L+IGGG
Sbjct: 184 AKKL--NIDVTGVSFHVGSGSTDASTFAQAISDSRFVFDMGTELGFNMHILDIGGGFPGT 241
Query: 309 YYHTGAVLPKPRNLIDTVRELV-----LSRNLNLIIEPGRSLIANTCCLVNHVTGVKTNG 363
K + + + L ++ EPGR +A+ L +V K
Sbjct: 242 RDAP----LKFEEIAGVINNALEKHFPPDLKLTIVAEPGRYYVASAFTLAVNVIAKKVTP 297
Query: 364 TKNFIVIDGSMAE------LIRPSLYDAY---------QHIELVSPAPQDAEISKFDVVG 408
V + + + +Y ++ + ++ V G
Sbjct: 298 GVQTDVGAHAESNAQSFMYYVNDGVYGSFNCILYDHAVVRPLPQREPIPNEKLYPSSVWG 357
Query: 409 PVCESADFLGKERELPTPDRGAGLVVHDAGAYCMSMASTYNLKMRPPEYWV 459
P C+ D + + LP G L+ D GAY + S++N P Y+V
Sbjct: 358 PTCDGLDQIVERYYLPEMQVGEWLLFEDMGAYTVVGTSSFNGFQSPTIYYV 408
>7odc_A Protein (ornithine decarboxylase); pyridoxal-5'-phosphate, PLP,
group IV decarboxylase, polyami parasitical,
chemotherapy target, putrescine; HET: PLP; 1.60A {Mus
musculus} SCOP: b.49.2.3 c.1.6.1 PDB: 2on3_A 1d7k_A*
Length = 424
Score = 279 bits (717), Expect = 3e-90
Identities = 95/414 (22%), Positives = 161/414 (38%), Gaps = 42/414 (10%)
Query: 72 DGFLYCEDV---RVQDVMETVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANN 128
D +D+ ++ +V + +K FY+ I + + +AL + YA+K N+
Sbjct: 15 DEGFTAKDILDQKINEVSSSDDKDAFYVADLGDILKKHLRWLKALPRVT--PFYAVKCND 72
Query: 129 NYKILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGV-FVN 187
+ I+ L +G G S E++L G + I+ K + + AA GV +
Sbjct: 73 SRAIVSTLAAIGTGFDCASKTEIQLVQGLGVPAERVIYANPCKQVSQIKYAASNGVQMMT 132
Query: 188 VDSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKLQWFLD 247
DSE +L + +R K ++LRI D D + ++ KFG + + L+
Sbjct: 133 FDSEIELMKV---ARAH-PKAKLVLRIATD-DSKAVCRLSV-----KFGATLKTSRLLLE 182
Query: 248 AVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGFEVDYLNIGGGLGI 307
K + ++G H+GS T D F A D GF + L+IGGG
Sbjct: 183 RAKEL--NIDVIGVSFHVGSGCTDPDTFVQAVSDARCVFDMATEVGFSMHLLDIGGGFPG 240
Query: 308 DYYHTGAVLPKPRNLIDTVRELV-----LSRNLNLIIEPGRSLIANTCCLVNHVTGVKT- 361
K + + + + +I EPGR +A+ L ++ KT
Sbjct: 241 SEDTK----LKFEEITSVINPALDKYFPSDSGVRIIAEPGRYYVASAFTLAVNIIAKKTV 296
Query: 362 -------------NGTKNFIVIDGSMAELIRPSLYDAYQHIELVSPAP-QDAEISKFDVV 407
N ++ + LYD L+ P D + +
Sbjct: 297 WKEQPGSDDEDESNEQTFMYYVNDGVYGSFNCILYDHAHVKALLQKRPKPDEKYYSSSIW 356
Query: 408 GPVCESADFLGKERELPTPDRGAGLVVHDAGAYCMSMASTYNLKMRPPEYWVRS 461
GP C+ D + + LP G ++ + GAY ++ AST+N RP Y+V S
Sbjct: 357 GPTCDGLDRIVERCNLPEMHVGDWMLFENMGAYTVAAASTFNGFQRPNIYYVMS 410
>2oo0_A ODC, ornithine decarboxylase; beta-alpha barrel, sheet, lyase; HET:
PLP; 1.90A {Homo sapiens}
Length = 471
Score = 279 bits (716), Expect = 2e-89
Identities = 94/414 (22%), Positives = 162/414 (39%), Gaps = 42/414 (10%)
Query: 72 DGFLYCEDV---RVQDVMETVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANN 128
D +D+ ++ +V + +K FY+ I + + +AL + YA+K N+
Sbjct: 25 DEGFTAKDILDQKINEVSSSDDKDAFYVADLGDILKKHLRWLKALPRVT--PFYAVKCND 82
Query: 129 NYKILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGV-FVN 187
+ I++ L G G S E++L G P + I+ K + + AA GV +
Sbjct: 83 SKAIVKTLAATGTGFDCASKTEIQLVQSLGVPPERIIYANPCKQVSQIKYAANNGVQMMT 142
Query: 188 VDSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKLQWFLD 247
DSE +L + +R K ++LRI D D + ++ KFG + L+
Sbjct: 143 FDSEVELMKV---ARAH-PKAKLVLRIATD-DSKAVCRLSV-----KFGATLRTSRLLLE 192
Query: 248 AVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQGFEVDYLNIGGGLGI 307
K + +VG H+GS T + F A D GF + L+IGGG
Sbjct: 193 RAKEL--NIDVVGVSFHVGSGCTDPETFVQAISDARCVFDMGAEVGFSMYLLDIGGGFPG 250
Query: 308 DYYHTGAVLPKPRNLIDTVRELV-----LSRNLNLIIEPGRSLIANTCCLVNHVTGVK-- 360
K + + + + +I EPGR +A+ L ++ K
Sbjct: 251 SEDVK----LKFEEITGVINPALDKYFPSDSGVRIIAEPGRYYVASAFTLAVNIIAKKIV 306
Query: 361 ------------TNGTKNFIVIDGSMAELIRPSLYDAYQHIELVSPAP-QDAEISKFDVV 407
++ ++ + LYD L+ P D + +
Sbjct: 307 LKEQTGSDDEDESSEQTFMYYVNDGVYGSFNCILYDHAHVKPLLQKRPKPDEKYYSSSIW 366
Query: 408 GPVCESADFLGKERELPTPDRGAGLVVHDAGAYCMSMASTYNLKMRPPEYWVRS 461
GP C+ D + + +LP G ++ + GAY ++ AST+N RP Y+V S
Sbjct: 367 GPTCDGLDRIVERCDLPEMHVGDWMLFENMGAYTVAAASTFNGFQRPTIYYVMS 420
>3nzp_A Arginine decarboxylase; alpha-beta protein, structural genomics,
PSI-biology, protei structure initiative; HET: PLP;
3.00A {Campylobacter jejuni subsp}
Length = 619
Score = 233 bits (595), Expect = 4e-70
Identities = 73/381 (19%), Positives = 142/381 (37%), Gaps = 40/381 (10%)
Query: 72 DGFL---YCEDVRVQDVMETVEKR----PFYLYSKPQITRNVE----AYKQALEGLNS-- 118
+G + Y + + D+++ + P L I + +E + +A +
Sbjct: 18 NGKVCINYEKKPAIIDIVKELRDDGYKGPLLLRFPHLIQKQIENIYGNFNKARKEFGYKG 77
Query: 119 --IIGYAIKANNNYKILEHL----RKLGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKL 172
Y +K N +++L + G S EL LA+ + NG
Sbjct: 78 GFNAVYPLKVNQYPGFVKNLVKLGKDYNYGLEAGSKAELLLAMAYNNEGAPITVNGFKDR 137
Query: 173 LEDLVLAAQEG-----VFVNVDSEFDLENIV-VASRIAGKKVNVLLRINPDVDPQVHPYV 226
E + + + + ++ +LE I+ +A K N+ LR+ V +
Sbjct: 138 -ELINIGFIAAEMGHNITLTIEGLNELEAIIDIAKERFKPKPNIGLRVRLH-SAGVGIWA 195
Query: 227 ATGNKNSKFGIRNEKLQWFLDAVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYI 286
+G NSKFG+ + +L ++ +K + + H HLGS IT++ + A N
Sbjct: 196 KSGGINSKFGLTSTELIEAVNLLKENKLLEQFTMIHFHLGSQITEIHPLKKALNEAGNIY 255
Query: 287 DKIRAQGFE-VDYLNIGGGLGIDYYHTGAVLPKPRNL----------IDTVRELVLSRNL 335
++R G + + +N+GGGL ++Y + L + + E
Sbjct: 256 TELRKMGAKNLKAINLGGGLAVEYSQFKNEKSRNYTLREYANDVVFILKNIAEQKKDLEP 315
Query: 336 NLIIEPGRSLIANTCCLVNHVTGVKTNGTKNFIVIDGSMAELIRPSLYDAYQHIELVSPA 395
++ IE GR + AN L+ V + + +I + LYD Y+ I+ +
Sbjct: 316 DIFIESGRFVAANHAVLIAPVLELFSQEYAENKLILKKQNPKLIDELYDLYKSIKPSNAL 375
Query: 396 PQDAEISKFDVVGPVCESADF 416
+ D + + D
Sbjct: 376 EYLHD--SIDHLESILTLFDL 394
>3nzq_A ADC, biosynthetic arginine decarboxylase; alpha-beta protein,
structural genomics, PSI-biology, protei structure
initiative; 3.10A {Escherichia coli}
Length = 666
Score = 231 bits (590), Expect = 5e-69
Identities = 68/424 (16%), Positives = 143/424 (33%), Gaps = 41/424 (9%)
Query: 72 DGFLYCEDVRVQDVMETVEKR----PFYLYSKPQITRNVEAYKQALEGL--------NSI 119
D + V + +++T E + P + + + A + +
Sbjct: 62 DPDVPEARVDLAQLVKTREAQGQRLPALFCFPQILQHRLRSINAAFKRARESYGYNGDYF 121
Query: 120 IGYAIKANNNYKILEHLRKLG--CGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLV 177
+ Y IK N + +++E L G G S EL L I K E +
Sbjct: 122 LVYPIKVNQHRRVIESLIHSGEPLGLEAGSKAELMAVLAHAGMTRSVIVCNGYKDREYIR 181
Query: 178 LAAQEG-----VFVNVDSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKN 232
LA V++ ++ ++ ++ + + +R + ++G +
Sbjct: 182 LALIGEKMGHKVYLVIEKMSEIAIVLDEAERLNVVPRLGVRARL-ASQGSGKWQSSGGEK 240
Query: 233 SKFGIRNEKLQWFLDAVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQ 292
SKFG+ ++ ++ ++ L H HLGS + + + ++
Sbjct: 241 SKFGLAATQVLQLVETLREAGRLDSLQLLHFHLGSQMANIRDIATGVRESARFYVELHKL 300
Query: 293 GFEVDYLNIGGGLGIDYYHTGAVLPKPRN---------LIDTVRELVLSRNL---NLIIE 340
G + ++GGGLG+DY T + N +I + + L +I E
Sbjct: 301 GVNIQCFDVGGGLGVDYEGTRSQSDCSVNYGLNEYANNIIWAIGDACEENGLPHPTVITE 360
Query: 341 PGRSLIANTCCLVNHVTGVKTNGTKNFIVIDGSMAELIRP--SLYDAYQHIELVSPAPQD 398
GR++ A+ LV+++ GV+ N + V + R S+++ +Q +
Sbjct: 361 SGRAVTAHHTVLVSNIIGVERN---EYTVPTAPAEDAPRALQSMWETWQEMHEPGTRRSL 417
Query: 399 AEISKFDVVGPVCESADFLGKERELPTPDRGAGLVVHDAGAYCMSMASTYNLKMRPPEYW 458
E D + + +R + C + + + R
Sbjct: 418 REWL-HDSQMDLHD-IHIGYSSGIFSLQER--AWAEQLYLSMCHEVQKQLDPQNRAHRPI 473
Query: 459 VRSL 462
+ L
Sbjct: 474 IDEL 477
>3n2o_A ADC, biosynthetic arginine decarboxylase; lyase; HET: PLP; 2.30A
{Vibrio vulnificus}
Length = 648
Score = 218 bits (556), Expect = 3e-64
Identities = 70/378 (18%), Positives = 143/378 (37%), Gaps = 39/378 (10%)
Query: 72 DGFLYCEDVRVQDVMETVEKR----PFYLYSKPQITRNVEAYKQALEGL--------NSI 119
+++ +++ +E+R P + + + V + A +
Sbjct: 40 PRSDNAHQIQLSKIVKQLEERQLNVPVLVRFPQILHQRVHSICDAFNQAIEEYQYPNKYL 99
Query: 120 IGYAIKANNNYKILEHLRKLG-------CGAVLVSGNELRLALRAGFDPTKCIFNGNGKL 172
+ Y IK N ++++ + G S EL L + I K
Sbjct: 100 LVYPIKVNQQREVVDEILASQAQLETKQLGLEAGSKPELLAVLAMAQHASSVIVCNGYKD 159
Query: 173 LEDLVLAAQEG-----VFVNVDSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVA 227
E + LA VF+ ++ +L+ ++ ++ G + +RI + A
Sbjct: 160 REYIRLALIGEKLGHKVFIVLEKMSELDLVLREAKSLGVTPRLGIRIRLASQGA-GKWQA 218
Query: 228 TGNKNSKFGIRNEKLQWFLDAVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYID 287
+G + SKFG+ ++ + +K L H HLGS + + R+ +
Sbjct: 219 SGGEKSKFGLSASQVLNVISRLKKENQLDTLQLVHFHLGSQMANIRDVRNGVNESARFYC 278
Query: 288 KIRAQGFEVDYLNIGGGLGIDYYHTGAVLPKPRN---------LIDTVRELVLSRN---L 335
++R G + Y ++GGGL IDY T + N +++TV ++
Sbjct: 279 ELRTLGANITYFDVGGGLAIDYDGTRSQSSNSMNYGLVEYARNIVNTVGDVCKDYKQPMP 338
Query: 336 NLIIEPGRSLIANTCCLVNHVTGVKTNGTKNFIVIDGSMAELIRPSLYDAYQHIELVSPA 395
+I E GRSL A+ L+++V G +T + + L+ +++ ++ ++ + A
Sbjct: 339 VIISESGRSLTAHHAVLISNVIGTETYKPETVTEPE-EDFPLLLNNMWRSWLNLHNGTDA 397
Query: 396 PQDAEISKFDVVGPVCES 413
EI D + E
Sbjct: 398 RALIEIY-NDTQSDLAEV 414
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 60.8 bits (147), Expect = 7e-10
Identities = 89/477 (18%), Positives = 147/477 (30%), Gaps = 145/477 (30%)
Query: 2 AATQLCSN-SASLSKALTQNPFPKIPISPLKTTLNFQRTLKPFTLKAVLSQNPAKSQTHT 60
A+QL + L + P +P + F L V S
Sbjct: 29 IASQLQEQFNKILPEPTEGFAADDEPTTPAELVGKF--------LGYVSSLVEPSKVGQF 80
Query: 61 APV-EHCFSKKADGFLYCEDV------RVQDVMETVEKRPF----YLYSKPQITRNVEA- 108
V C ++ + +L D+ +Q+ T+ K Y+ ++ R +
Sbjct: 81 DQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKK 140
Query: 109 -----YKQALEGLNSIIGYAI----KANNNYKILEHLRKLGCGAVLVSGNELRLALRAGF 159
++ EG + AI ++Y E LR L +
Sbjct: 141 SNSALFRAVGEGNAQL--VAIFGGQGNTDDY--FEELRDL-------------------Y 177
Query: 160 DPTKCIFNGNGKLLEDLVLAAQEGVFVNVDSEFDLENIVVASRIAGKKVNVL--LRINPD 217
++ L+ DL+ + E + + + D A ++ + +N+L L NP
Sbjct: 178 Q----TYHV---LVGDLIKFSAETLSELIRTTLD------AEKVFTQGLNILEWLE-NPS 223
Query: 218 VDPQVHPYVATGNKNSKF---GIRNEKLQWFLDAVKA---HPNELK--LVGAHCHLGSTI 269
P Y+ + I +L ++ K P EL+ L GA H +
Sbjct: 224 NTPDK-DYLLS----IPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLV 278
Query: 270 TKVDI--------FRDAAVLMVNYIDKI--RAQ----------GFEVDYLNIGGGLGIDY 309
T V I F + + + I R D L G+
Sbjct: 279 TAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGV---- 334
Query: 310 YHTGAVLPKP----RNL-IDTVRELVLSRNLNLIIEPGRSL-IANTCCLVNHVTGVKTNG 363
P P NL + V++ V N +L G+ + I+ LVN G
Sbjct: 335 -------PSPMLSISNLTQEQVQDYVNKTNSHL--PAGKQVEIS----LVN--------G 373
Query: 364 TKNFIVIDGSMAELIRP-SLYDAYQHIELVSPAPQDAEISK--FDVVGPVCESADFL 417
KN V+ G P SLY + AP + S+ F S FL
Sbjct: 374 AKNL-VVSGP------PQSLYGLNLTLRKAK-APSGLDQSRIPFSERKLKF-SNRFL 421
Score = 41.6 bits (97), Expect = 7e-04
Identities = 83/533 (15%), Positives = 142/533 (26%), Gaps = 212/533 (39%)
Query: 14 SKALTQNPFPKIPISPL---------KTTLNF--Q----------RTL----KPF----- 43
++ + + PF K S L + F Q R L
Sbjct: 129 ARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLI 188
Query: 44 -----TLKAVLSQNPAKSQTHTAPVEHCFSKKADGFLYCEDVRVQDVMETVEKRP--FYL 96
TL L + ++ F++ G ++ + +E P YL
Sbjct: 189 KFSAETLSE-LIRTTLDAEKV-------FTQ---GL----NI--LEWLENPSNTPDKDYL 231
Query: 97 ----YSKPQITRNVEAYKQALEGLNSIIGYAIKANNNYKILEHLRKLGCGAVLVSGNELR 152
S P I G+ + Y + A + LG + ELR
Sbjct: 232 LSIPISCPLI------------GVIQLAHYVVTA----------KLLG-----FTPGELR 264
Query: 153 LALRAGFDPTKCIFNGNGKLLEDLVLAAQEGVFVNVDS--EFDLENIVVASRIAGKKVNV 210
L+ T + LV A DS F ++ A + V
Sbjct: 265 SYLKGA---TGHS--------QGLVTAV---AIAETDSWESF-FVSVRKA-------ITV 302
Query: 211 LLRI---------NPDVDPQVHPYVATGNKNSK---FGIRN---EKLQWFLDAVKAH-PN 254
L I N + P + N+ I N E++Q +++ +H P
Sbjct: 303 LFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPA 362
Query: 255 ELKLVGAHCHLGSTITKVDIFRDAAVL---------MVNYIDKIRA-----QG------- 293
+ V+ + + K +A Q
Sbjct: 363 G-----KQVEISLVNG-----AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSER 412
Query: 294 ---FEVDYLNIGGGLGIDYYHT----GAVLPKPRNLIDTVRELVLSRNLNLIIEPGRSL- 345
F +L + +H+ A D + + ++ N++ + +
Sbjct: 413 KLKFSNRFLPVASP-----FHSHLLVPAS--------DLINKDLVKNNVSF---NAKDIQ 456
Query: 346 IANTCCLVNHV-TGVKTNGTKNFIVIDGSMAELIRPSLYDAYQHIELVSP----APQDAE 400
I V G + V+ GS I + D I + P +
Sbjct: 457 IP-----VYDTFDG------SDLRVLSGS----ISERIVDC---I-IRLPVKWETTTQFK 497
Query: 401 ISKFDVVGPVCESADFLGK--ERELPTPDRGAGLVVHDAGAYCMSMASTYNLK 451
+ GP S LG R G G+ V AG ++ Y K
Sbjct: 498 ATHILDFGPGGASG--LGVLTHRNK----DGTGVRVIVAGTLDINPDDDYGFK 544
Score = 39.3 bits (91), Expect = 0.003
Identities = 49/364 (13%), Positives = 95/364 (26%), Gaps = 144/364 (39%)
Query: 83 QDV---METVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKA--NNNYK------ 131
Q+ M+ LY + ++V + +A G++I NN
Sbjct: 1627 QEQGMGMD--------LYKTSKAAQDV--WNRADNHFKDTYGFSILDIVINNPVNLTIHF 1676
Query: 132 -------ILEHLRKLGCGAVLVSGNELRLALRAGFDP--TKCIFNG-NGKLLEDLVLAAQ 181
I E+ + +V G + + T F G L
Sbjct: 1677 GGEKGKRIRENYSAM-IFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLL--------- 1726
Query: 182 EGVFVNVDSEFDL-EN----IVVASRIAGKKVNVLLRINPDVDPQVHPYVATGNKNSKFG 236
+ + + + A + L+ + G +
Sbjct: 1727 -----------SATQFTQPALTLMEKAAFE----DLK-------------SKGLIPA--- 1755
Query: 237 IRNEKLQWFLDAVKA-HPNELKLVG---AHCHLGSTITKVDIFRDAAVLMVNYIDKIRAQ 292
DA A H +G A L ++ + V Y R
Sbjct: 1756 ----------DATFAGHS-----LGEYAALASLADVMS----IESLVEV-VFY----R-- 1789
Query: 293 GFEVDYLNIGGGLGIDYYHTGAVLPKPRNLI---DTVRELV--LSRNLNLIIEPGRSLIA 347
G + LG Y A+ P + ++ +V + + ++E
Sbjct: 1790 GMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEI------ 1843
Query: 348 NTCCLVNHVTGVKTNGTKNF----IVIDGSMA--ELIRPSL-YDAYQHIEL----VSPAP 396
VN+ N V G + + + L + Q I++ S +
Sbjct: 1844 -----VNY----------NVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSLSL 1888
Query: 397 QDAE 400
++ E
Sbjct: 1889 EEVE 1892
Score = 28.5 bits (63), Expect = 6.1
Identities = 6/26 (23%), Positives = 12/26 (46%)
Query: 13 LSKALTQNPFPKIPISPLKTTLNFQR 38
++ L KI I L+ +L+ +
Sbjct: 1865 VTNVLNFIKLQKIDIIELQKSLSLEE 1890
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 42.1 bits (98), Expect = 4e-04
Identities = 61/418 (14%), Positives = 120/418 (28%), Gaps = 129/418 (30%)
Query: 5 QLCSNSASLSKALTQNPF----PKIPISPLKTTLN-------FQRTL------------K 41
+L + T K+ I ++ L ++ L
Sbjct: 204 KLLYQ---IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN 260
Query: 42 PF-----TL-----KAVLSQNPAKSQTHTAPVEHC--FSK-KADG-FLYCEDVRVQDV-M 86
F L K V A + TH + H + + L D R QD+
Sbjct: 261 AFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPR 320
Query: 87 ETVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANNNYKILEHLRKLGCGAVL- 145
E + P L SII +I+ ++ + + C +
Sbjct: 321 EVLTTNPRRL---------------------SIIAESIRDGLA--TWDNWKHVNCDKLTT 357
Query: 146 ---VSGNELRLA-LRAGFDPTKC-IFNGNGKLLEDLVLAAQEGVFVNVDSEFDLENIV-- 198
S N L A R FD + +F + + +L+ + + D+ +V
Sbjct: 358 IIESSLNVLEPAEYRKMFD--RLSVFPPSAHIPTI-LLS----LIWFDVIKSDVMVVVNK 410
Query: 199 -VASRIAGKKVN----------VLLRINPDVDPQVH-----PY-VATGNKNSKFGIRNEK 241
+ K+ + L++ + + +H Y + +
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470
Query: 242 LQWFLDAVKAHPNELKLVGAHCHLGSTITKVDIFRDAAVLMVNYID------KIRAQGFE 295
++ +H +G H ++ +FR ++D KIR
Sbjct: 471 QYFY-----SH------IGHHLKNIEHPERMTLFRMV------FLDFRFLEQKIRHDSTA 513
Query: 296 VDYLNIGGGLG-----IDYY--HTGAVLPKPRNLIDTVRELVLSRNLNLIIEPGRSLI 346
N G + + +Y + PK L++ + + + NLI L+
Sbjct: 514 ---WNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLL 568
>3r79_A Uncharacterized protein; PSI-biology, structural genomics, NEW YORK
structural genomi research consortium, TIM barrel; HET:
PLP; 1.90A {Agrobacterium tumefaciens}
Length = 244
Score = 34.4 bits (80), Expect = 0.056
Identities = 13/79 (16%), Positives = 28/79 (35%), Gaps = 23/79 (29%)
Query: 192 FD----LENIVVASRIA------GKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEK 241
FD ++ +A ++ G+ + +++N TG + K GI +
Sbjct: 98 FDVVESIDREKIARALSEECARQGRSLRFYVQVN------------TGLEPQKAGIDPRE 145
Query: 242 LQWFLDAVKAHPNELKLVG 260
F+ + L + G
Sbjct: 146 TVAFVAFCRDELK-LPVEG 163
>3gwq_A D-serine deaminase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2, lyase; HET: MSE; 2.00A {Burkholderia xenovorans
LB400}
Length = 426
Score = 33.6 bits (76), Expect = 0.14
Identities = 35/246 (14%), Positives = 80/246 (32%), Gaps = 26/246 (10%)
Query: 93 PFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANNNYKILEHLRKLGCGAVLVS-GNEL 151
P + ++ N++ + + + K ++ + G + ++ +++
Sbjct: 47 PAAVLYADRVEHNLKWMQAFVAEYGVKLAPHGKTTMAPQLFRRQLETGAWGITLATAHQV 106
Query: 152 RLALRAGFD----PTKCIFNGNGKLLEDLVLAAQEGVFVNVDSEFDLENIVVASRIAGKK 207
R A G + + N ++ +L+ + F VDS +E + + K+
Sbjct: 107 RAAYHGGVSRVLMANQLVGRRNMMMVAELLSDPEFEFFCLVDSVEGVEQLGEFFKSVNKQ 166
Query: 208 VNVLLRINPDVDPQVHPYVATGNKNSKFGIR-NEKLQWFLDAVKAHPNELKLVGAHCHLG 266
+ VLL + + G+R + L+A+ +P+ LKL G + G
Sbjct: 167 LQVLLELGVPGG--------------RTGVRDAAQRNAVLEAITRYPDTLKLAGVELYEG 212
Query: 267 ST---ITKVDIFRDAAVLMVNYIDKIRAQGFEVDYLNIGGGLGIDYYHTGAVLPKPRNLI 323
+ + A + +++ R + G G Y K
Sbjct: 213 VLKEEHEVREFLQSAVAVTRELVEQERFARAPA--VLSGAGSAW-YDVVAEEFVKASETG 269
Query: 324 DTVREL 329
L
Sbjct: 270 KVEVVL 275
>3sy1_A UPF0001 protein YGGS; engineered protein, structural genomics,
PSI-biology, protei structure initiative; HET: MES;
1.47A {Escherichia coli} PDB: 1w8g_A*
Length = 245
Score = 32.1 bits (74), Expect = 0.29
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 13/57 (22%)
Query: 204 AGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKLQWFLDAVKAHPNELKLVG 260
+NVL++IN ++NSK GI+ +L AV P L+L G
Sbjct: 120 ELPPLNVLIQIN------------ISDENSKSGIQLAELDELAAAVAELPR-LRLRG 163
>3cpg_A Uncharacterized protein; unknown protein, TIM barrel, monomer,
structural genomics, PSI-2, protein structure
initiative; 1.71A {Bifidobacterium adolescentis
ATCC15703}
Length = 282
Score = 31.9 bits (73), Expect = 0.41
Identities = 11/57 (19%), Positives = 17/57 (29%), Gaps = 13/57 (22%)
Query: 204 AGKKVNVLLRINPDVDPQVHPYVATGNKNSKFGIRNEKLQWFLDAVKAHPNELKLVG 260
G V VLL +V+ + SK G + ++L G
Sbjct: 157 RGITVGVLL--------EVN----ESGEESKSGCDPAHAIRIAQKIGTLDG-IELQG 200
>2npn_A Putative cobalamin synthesis related protein; COBF, PSI-2, MAD,
struc genomics, SAM, S-adenosylmethionine, MCSG; HET:
MSE SAM; 1.60A {Corynebacterium diphtheriae}
Length = 251
Score = 30.6 bits (69), Expect = 0.80
Identities = 20/110 (18%), Positives = 38/110 (34%), Gaps = 17/110 (15%)
Query: 79 DVRVQDVMETVEKRPFYLYSKPQITRNVEAYKQALEGLNSIIGYAIKANNNYKILEHLRK 138
+R + V P Y + P+ RN + Y++ + ++ I E
Sbjct: 46 ALRQKIVDTHAPGTPIYAVTDPERDRNPDNYEEEVRRWHA----ERAHLLASTIRERTPD 101
Query: 139 LGCGAVLVSGNELRLALRAGFDPTKCIFNGNGKLLEDLVLAAQEGVFVNV 188
G A LV G DP+ +++ +++E + V V
Sbjct: 102 DGAVAFLVWG-----------DPS--LYDSTLRIIEHMRNLEDLHADVKV 138
>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein
complex I, protein TRAN; 2.90A {Saccharomyces
cerevisiae} PDB: 3mv3_B
Length = 310
Score = 29.3 bits (65), Expect = 2.5
Identities = 10/66 (15%), Positives = 24/66 (36%), Gaps = 2/66 (3%)
Query: 171 KLLEDLVLAAQEGVFVNVDSEFDLENIVVASRIAGKKVNVLLRINPDVDPQVHPYVA-TG 229
+LL + ++ + L N + + + G L +D + H ++
Sbjct: 235 ELLLSDYYSVEQKENAVLYKPTFLANQITLALMQGLDTEDLTNQLVKLDHE-HAFIKHHQ 293
Query: 230 NKNSKF 235
++KF
Sbjct: 294 EIDAKF 299
>3kd8_A 2,3-bisphosphoglycerate-independent phosphoglycerate mutase;
structural genomics, PSI-2, protein genomics, MCSG,
glycolysis isomerase; 2.60A {Thermoplasma acidophilum}
PDB: 3idd_A
Length = 399
Score = 29.0 bits (64), Expect = 4.2
Identities = 3/31 (9%), Positives = 10/31 (32%)
Query: 103 TRNVEAYKQALEGLNSIIGYAIKANNNYKIL 133
N + +E ++ + ++ I
Sbjct: 307 DGNYPLKRDVIEDIDRAMEPLKSIGDHAVIC 337
>1zmd_A Dihydrolipoyl dehydrogenase; lipoamide dehydrogenase, pyruvate
dehydrogenase, alpha- ketoglutarate dehydrogenase; HET:
FAD NAI; 2.08A {Homo sapiens} PDB: 1zmc_A* 2f5z_A*
1zy8_A* 3rnm_A*
Length = 474
Score = 28.6 bits (65), Expect = 5.0
Identities = 11/37 (29%), Positives = 17/37 (45%), Gaps = 7/37 (18%)
Query: 195 ENIVVASRIAGKKVNVLLRINPDVDPQV---HPYVAT 228
E I+ +AG V++ + + P V HP VA
Sbjct: 334 EGIICVEGMAGGAVHI----DYNCVPSVIYTHPEVAW 366
>1ojt_A Surface protein; redox-active center, glycolysis, oxidoreductase,
NAD, flavop FAD, P64K; HET: FAD; 2.75A {Neisseria
meningitidis} SCOP: c.3.1.5 c.3.1.5 d.87.1.1 PDB:
1bhy_A*
Length = 482
Score = 28.7 bits (65), Expect = 5.4
Identities = 12/37 (32%), Positives = 13/37 (35%), Gaps = 7/37 (18%)
Query: 195 ENIVVASRIAGKKVNVLLRINPDVDPQV---HPYVAT 228
E V A AG K + V P V P VA
Sbjct: 338 EGHVAAENCAGHKAYF----DARVIPGVAYTSPEVAW 370
>1ebd_A E3BD, dihydrolipoamide dehydrogenase; redox-active center,
glycolysis, oxidoreductase; HET: FAD; 2.60A {Geobacillus
stearothermophilus} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
Length = 455
Score = 28.2 bits (64), Expect = 6.2
Identities = 11/37 (29%), Positives = 13/37 (35%), Gaps = 7/37 (18%)
Query: 195 ENIVVASRIAGKKVNVLLRINPDVDPQV---HPYVAT 228
E V A IAG V + P V P A+
Sbjct: 322 EGKVAAEAIAGHPSAV----DYVAIPAVVFSDPECAS 354
>1lvl_A Dihydrolipoamide dehydrogenase; oxidoreductase; HET: FAD NAD; 2.45A
{Pseudomonas putida} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
Length = 458
Score = 28.2 bits (64), Expect = 6.8
Identities = 10/37 (27%), Positives = 12/37 (32%), Gaps = 7/37 (18%)
Query: 195 ENIVVASRIAGKKVNVLLRINPDVDPQV---HPYVAT 228
+ +VA IAGK P V P V
Sbjct: 319 QGEMVAEIIAGKARRF----EPAAIAAVCFTDPEVVV 351
>1yr1_A Divib, FTSQ, cell-division initiation protein; divisome, cell
cycle; NMR {Geobacillus stearothermophilus} PDB: 2alj_A
Length = 119
Score = 26.8 bits (59), Expect = 7.7
Identities = 8/65 (12%), Positives = 17/65 (26%), Gaps = 14/65 (21%)
Query: 117 NSIIGYAIKANNNYKILEHLRKLGCGAVLVSGNELRLALRAGFDPTKCIFNG--NGKLLE 174
I Y + +LE +G L+ + G +G +
Sbjct: 4 WRRIAYVYDRQTFFPLLE------------NGRLLKQEGTKTAPSDAPVLVGWKDGDAIA 51
Query: 175 DLVLA 179
++
Sbjct: 52 EMTGQ 56
>3uk2_A Pantothenate synthetase; AMP, structural genomics, seattle S
genomics center for infectious disease, ssgcid, ligase;
HET: AMP; 2.25A {Burkholderia thailandensis}
Length = 283
Score = 27.9 bits (63), Expect = 8.0
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 276 RDAAVLMVNYIDKIRAQGFEVDYLNI 301
RD A + + + A+G++ DY++I
Sbjct: 219 RDLAAIERRAVAHLSARGWQPDYVSI 244
>3lad_A Dihydrolipoamide dehydrogenase; oxidoreductase; HET: FAD; 2.20A
{Azotobacter vinelandii} SCOP: c.3.1.5 c.3.1.5 d.87.1.1
PDB: 1lpf_A*
Length = 476
Score = 27.9 bits (63), Expect = 8.4
Identities = 16/37 (43%), Positives = 20/37 (54%), Gaps = 7/37 (18%)
Query: 195 ENIVVASRIAGKKVNVLLRINPDVDPQV---HPYVAT 228
E +VVA RIAG K + N D+ P V HP +A
Sbjct: 332 EGVVVAERIAGHKAQM----NYDLIPAVIYTHPEIAG 364
>3q12_A Pantoate--beta-alanine ligase; structural genomics, center for
structural genomics of infec diseases, csgid; HET: PAF;
1.58A {Yersinia pestis} PDB: 3q10_A* 3mue_A 1iho_A
3guz_A*
Length = 287
Score = 27.5 bits (62), Expect = 9.1
Identities = 7/26 (26%), Positives = 10/26 (38%)
Query: 276 RDAAVLMVNYIDKIRAQGFEVDYLNI 301
R L+ ++ GF D L I
Sbjct: 223 RQIDALLEEAAAQLLRVGFTPDELFI 248
>2qae_A Lipoamide, dihydrolipoyl dehydrogenase; FAD-cystine-oxidoreductase,
homodimer; HET: FAD; 1.90A {Trypanosoma cruzi}
Length = 468
Score = 27.8 bits (63), Expect = 9.4
Identities = 13/37 (35%), Positives = 17/37 (45%), Gaps = 7/37 (18%)
Query: 195 ENIVVASRIAGKKVNVLLRINPDVDPQV---HPYVAT 228
E + A +AGK +V N V P V P VA+
Sbjct: 329 EGVACAEILAGKPGHV----NYGVIPAVIYTMPEVAS 361
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 0.137 0.405
Gapped
Lambda K H
0.267 0.0739 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,328,317
Number of extensions: 464769
Number of successful extensions: 1079
Number of sequences better than 10.0: 1
Number of HSP's gapped: 953
Number of HSP's successfully gapped: 54
Length of query: 471
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 374
Effective length of database: 3,993,456
Effective search space: 1493552544
Effective search space used: 1493552544
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: 59 (26.5 bits)