RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780741|ref|YP_003065154.1| carboxynorspermidine
decarboxylase [Candidatus Liberibacter asiaticus str. psy62]
(367 letters)
>3n29_A Carboxynorspermidine decarboxylase; lyase; HET: PLP; 1.90A
{Campylobacter jejuni subsp}
Length = 418
Score = 285 bits (731), Expect = 8e-78
Identities = 139/378 (36%), Positives = 211/378 (55%), Gaps = 18/378 (4%)
Query: 2 IKTPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLY 61
I+TP Y++++ KL N + + + +G K+LLALK FA G + +Y+ G T S L+
Sbjct: 42 IQTPAYILEEDKLRKNCELLASVGEKSGAKVLLALKGFAFSGAMKIVGEYLKGCTCSGLW 101
Query: 62 EVMLGHEKFGGETHAYNVAYKDCEIDAVLSNCDTIIFNTVSQLNKFKDKAQKLHKKIGLR 121
E E E H Y+ A+K+ EI + S I+FN+++Q +KF+ K QK +GLR
Sbjct: 102 EAKFAKEYMDKEIHTYSPAFKEDEIGEIASLSHHIVFNSLAQFHKFQSKTQK--NSLGLR 159
Query: 122 INPSVSYSKFILADPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNCENKSFLCFSAMLKN 181
N S + L +P +SRLG + KD ++ + GL FH CE + A+LK
Sbjct: 160 CNVEFSLAPKELYNPCGRYSRLGIRAKDFENVDLNAIEGLHFHALCEESAD-ALEAVLKV 218
Query: 182 IEKEFGHFITQIEWISLGGGIHFTDKDYPVKDFCQRLKEFSEKYSVQIYLEPGEAIVTNT 241
E++FG +I Q++W++ GGG H T K Y V+ K FS+KY VQ+YLEPGEA+ T
Sbjct: 219 FEEKFGKWIGQMKWVNFGGGHHITKKGYDVEKLIALCKNFSDKYGVQVYLEPGEAVGWQT 278
Query: 242 TTLNTTVLDISENIKNLVIVDSSVEAHVPDYLLYQESATIY---------------PNTG 286
L +V+DI EN K + I+D+S EAH+PD ++ ++ +
Sbjct: 279 GNLVASVVDIIENEKQIAILDTSSEAHMPDTIIMPYTSEVLNARILATRENEKISDLKEN 338
Query: 287 PYTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNINRKNWFNGINMPTIAVKN 346
+ ++ G +CLAGD+ GE+ F+K +KIGD+I F D Y I + FNGI +P + + +
Sbjct: 339 EFAYLLTGNTCLAGDVMGEYAFDKKLKIGDKIVFLDQIHYTIVKNTTFNGIRLPNLMLLD 398
Query: 347 VDGTIKAIREFSYNDYYN 364
++ IREFSY DY
Sbjct: 399 HKNELQMIREFSYKDYSL 416
>3mt1_A Putative carboxynorspermidine decarboxylase prote; PSI2, MCSG,
structural genomics; 2.50A {Sinorhizobium meliloti}
Length = 365
Score = 272 bits (696), Expect = 8e-74
Identities = 215/367 (58%), Positives = 274/367 (74%), Gaps = 2/367 (0%)
Query: 1 MIKTPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSL 60
MI+TPYYLIDK KL N++ ++R+ +G K LLALKCFA W +FD + YMDGTTSSSL
Sbjct: 1 MIETPYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFATWSVFDLMRDYMDGTTSSSL 60
Query: 61 YEVMLGHEKFGGETHAYNVAYKDCEIDAVLSNCDTIIFNTVSQLNKFKDKAQKLHKKIGL 120
+EV LG E+FG ETHAY+VAY D EID V+S+ D IIFN++SQL +F DKA + GL
Sbjct: 61 FEVRLGRERFGKETHAYSVAYGDNEIDEVVSHADKIIFNSISQLERFADKAAGI--ARGL 118
Query: 121 RINPSVSYSKFILADPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNCENKSFLCFSAMLK 180
R+NP VS S F LADP RPFSRLGE K+E + +NG M HNNCENK F F ML
Sbjct: 119 RLNPQVSSSSFDLADPARPFSRLGEWDVPKVERVMDRINGFMIHNNCENKDFGLFDRMLG 178
Query: 181 NIEKEFGHFITQIEWISLGGGIHFTDKDYPVKDFCQRLKEFSEKYSVQIYLEPGEAIVTN 240
IE+ FG I +++W+SLGGGIHFT DYPV F RL+ FS++Y VQIYLEPGEA +T
Sbjct: 179 EIEERFGALIARVDWVSLGGGIHFTGDDYPVDAFSARLRAFSDRYGVQIYLEPGEASITK 238
Query: 241 TTTLNTTVLDISENIKNLVIVDSSVEAHVPDYLLYQESATIYPNTGPYTAMVCGRSCLAG 300
+TTL TVLD N KNL IVDSS+EAH+ D L+Y+E+A + PN G ++ M+CG+SCLAG
Sbjct: 239 STTLEVTVLDTLYNGKNLAIVDSSIEAHMLDLLIYRETAKVLPNEGSHSYMICGKSCLAG 298
Query: 301 DIFGEFHFEKPVKIGDRISFEDVAGYNINRKNWFNGINMPTIAVKNVDGTIKAIREFSYN 360
D+FGEF F + +K+GDRISF+D AGY + +KNWFNG+ MP IA++ +DG+++ +REF+Y
Sbjct: 299 DVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGVKMPAIAIRELDGSVRTVREFTYA 358
Query: 361 DYYNNLS 367
DY +LS
Sbjct: 359 DYEQSLS 365
>3n2b_A Diaminopimelate decarboxylase; LYSA, lyase, structural genom center
for structural genomics of infectious diseases, CSGI;
1.80A {Vibrio cholerae}
Length = 441
Score = 151 bits (382), Expect = 3e-37
Identities = 65/388 (16%), Positives = 124/388 (31%), Gaps = 30/388 (7%)
Query: 4 TPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYEV 63
TP Y+ + L + + + A+K + G+ +TL + G S+ E+
Sbjct: 52 TPLYVYSRATLERHWHAFDKSVGDYPHLICYAVKANSNLGVLNTLARLGSGFDIVSVGEL 111
Query: 64 MLGHEKFGGETHAYNVAYKDCEID---AVLSNCDTIIFNTVSQLNKFKDKAQKLHKK--I 118
G + E + A+ + +L + A +L K I
Sbjct: 112 ERVLAAGGDPSKVVFSGVGKTEAEMKRALQLKIKCFNVESEPELQRLNKVAGELGVKAPI 171
Query: 119 GLRINPSVSYSKFILADPNRPFSRLGEKCKDKIESEIK-------NVNGLMFHNNCENKS 171
LRINP V ++ G + +V+G+ H + +
Sbjct: 172 SLRINPDVDAKTHPYISTGLRDNKFGITFDRAAQVYRLAHSLPNLDVHGIDCHIGSQLTA 231
Query: 172 FLCFSAMLKNIE------KEFGHFITQIEWISLGGGIHFTDKDYPVKDFCQRL-KEFSEK 224
F + K G I ++ G ++ + ++ + L
Sbjct: 232 LAPFIDATDRLLALIDSLKAEGIHIRHLDVGGGLGVVYRDELPPQPSEYAKALLDRLERH 291
Query: 225 YSVQIYLEPGEAIVTNTTTLNTTVLDISENI-KNLVIVDSSVEAHVPDYLLYQESATIYP 283
+++ EPG AI N L T V + KN I+D+++ + LYQ I P
Sbjct: 292 RDLELIFEPGRAIAANAGVLVTKVEFLKHTEHKNFAIIDAAMNDLIRPA-LYQAWQDIIP 350
Query: 284 NTG----PYTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNINRKNWFNGINM 339
T + G C D G+ + ++ GD ++ Y + +N
Sbjct: 351 LRPRQGEAQTYDLVGPVCETSDFLGK-DRDLVLQEGDLLAVRSSGAYGFTMSSNYNTRPR 409
Query: 340 P-TIAVKNVDGTIKAIRE-FSYNDYYNN 365
+ V +R+ + +
Sbjct: 410 VAEVMVD--GNKTYLVRQREELSSLWAL 435
>2yxx_A Diaminopimelate decarboxylase; TM1517, TIM beta/alpha barrel fold,
lyase, structural genomics, NPPSFA; HET: PLP; 1.70A
{Thermotoga maritima MSB8}
Length = 386
Score = 138 bits (347), Expect = 3e-33
Identities = 60/375 (16%), Positives = 121/375 (32%), Gaps = 15/375 (4%)
Query: 4 TPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYEV 63
TP Y+ ++ L + + + A+K + L + G + E+
Sbjct: 13 TPTYVYFEETLRKRSRLVKEVFEGVNLLPTFAVKANNNPVLLKILREEGFGMDVVTKGEL 72
Query: 64 MLGHEKFGGETHAYNVAY---KDCEIDAVLSNCDTIIFNTVSQLNKFKDKAQKLHKKIGL 120
+ +D + + + ++ ++ +++ + + +
Sbjct: 73 LAAKLAGVPSHTVVWNGNGKSRDQMEHFLREDVRIVNVDSFEEMEIWRELNPE-GVEYFI 131
Query: 121 RINPSVSYSKFILADPNRPFSRLGEKCKDKIESEIK----NVNGLMFHNNCENKSFLCFS 176
R+NP V + G +D + N+ GL H + F
Sbjct: 132 RVNPEVDAKTHPHISTGLKKHKFGIPLEDLDSFMERFRSMNIRGLHVHIGSQITRVEPFV 191
Query: 177 AMLKNIEKEFGHFITQIEWISLGGGIHFTDKDYPVKDFCQRLKEFSEKYSV-QIYLEPGE 235
+ + + E I++GGG + R K + ++ +E G
Sbjct: 192 EAFSKVVRASERY--GFEEINIGGGWGINYSGEELDLSSYREKVVPDLKRFKRVIVEIGR 249
Query: 236 AIVTNTTTLNTTVLDISENI-KNLVIVDSSVEAHVPD--YLLYQESATIYPNTGPYTAMV 292
IV + L V+ + K V+VD + + Y Y + A V
Sbjct: 250 YIVAPSGYLLLRVVLVKRRHNKAFVVVDGGMNVLIRPALYSAYHRIFVLGKQGKEMRADV 309
Query: 293 CGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNINRKNWFNGINMPTIAVKNVDGTIK 352
G C +GD+ V+ GD I+ E+ Y N +N P + +G I
Sbjct: 310 VGPLCESGDVIAYDRELPEVEPGDIIAVENAGAYGYTMSNNYNSTTRPAEVLVRENGRIS 369
Query: 353 AIRE-FSYNDYYNNL 366
IR + D + ++
Sbjct: 370 LIRRRETEMDIFKDV 384
>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 = 135 bits (342), Expect = 1e-32
Identities = 77/387 (19%), Positives = 135/387 (34%), Gaps = 37/387 (9%)
Query: 3 KTPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYE 62
P+++ D ++ +T + + V A+KC W + TL G +S E
Sbjct: 37 GDPFFVADLGDIVRKHET--WKKCLPRVTPFYAVKCNDDWRVLGTLAALGTGFDCASNTE 94
Query: 63 VMLGHE-KFGGETHAYNVAYK-DCEID-AVLSNCDTIIFNTVSQLNKFKDKAQKLHKKIG 119
+ E Y K I A S D + F+ V +L K K K+
Sbjct: 95 IQRVRGIGVPPEKIIYANPCKQISHIRYARDSGVDVMTFDCVDELEKVAKTHPKA--KMV 152
Query: 120 LRINPSVSYSKFILADPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNCENKSFLCFSAML 179
LRI+ S ++ L+ ++ + +V G+ FH + F+ +
Sbjct: 153 LRISTDDSLARCRLSVKFGAKVEDCRFILEQAKKLNIDVTGVSFHVGSGSTDASTFAQAI 212
Query: 180 KNIEKEFGHFIT---QIEWISLGGGIHFT-DKDYPVKDFCQRLKEFSEKY-----SVQIY 230
+ F + + +GGG T D ++ + EK+ + I
Sbjct: 213 SDSRFVFDMGTELGFNMHILDIGGGFPGTRDAPLKFEEIAGVINNALEKHFPPDLKLTIV 272
Query: 231 LEPGEAIVTNTTTLNTTVLDISENIKNLVIVDSSVEAHVPDYLLYQESA-------TIY- 282
EPG V + TL V+ V + E++ ++ Y +Y
Sbjct: 273 AEPGRYYVASAFTLAVNVIAKKVTPGVQTDVGAHAESNAQSFMYYVNDGVYGSFNCILYD 332
Query: 283 -------------PNTGPYTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNIN 329
PN Y + V G +C D E ++ +++G+ + FED+ Y +
Sbjct: 333 HAVVRPLPQREPIPNEKLYPSSVWGPTCDGLDQIVERYYLPEMQVGEWLLFEDMGAYTVV 392
Query: 330 RKNWFNGINMPTIAVKNVDGTIKAIRE 356
+ FNG PTI +RE
Sbjct: 393 GTSSFNGFQSPTIYYVVSGLPDHVVRE 419
>2qgh_A Diaminopimelate decarboxylase; lyase; HET: PLP LYS; 2.30A
{Helicobacter pylori} PDB: 3c5q_A*
Length = 425
Score = 118 bits (297), Expect = 2e-27
Identities = 68/387 (17%), Positives = 124/387 (32%), Gaps = 25/387 (6%)
Query: 3 KTPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYE 62
KTP+YL D K+ K + ALK + + L G S+ E
Sbjct: 32 KTPFYLYDFDKIKQAFLNYKEAFKGRKSLICYALKANSNLSILSLLAHLESGADCVSIGE 91
Query: 63 VMLGHEKFGGETHAYNVAYKDCEIDAVLSNCDTIIFNTVSQLNKFK-----DKAQKLHKK 117
+ + + + I+F V + K ++ + +
Sbjct: 92 IQRALKAGIKPYRIVFSGVGKSAFEIEQALKLNILFLNVESFMELKTIETIAQSLGIKAR 151
Query: 118 IGLRINPSVSYSKFILADPNRPFSRLG-------EKCKDKIESEIKNVNGLMFHNNCENK 170
I +RINP++ ++ G E +S + FH +
Sbjct: 152 ISIRINPNIDAKTHPYISTGLKENKFGVGEKEALEMFLWAKKSAFLEPVSVHFHIGSQLL 211
Query: 171 SFLCFS------AMLKNIEKEFGHFITQIEWISLGGGIHFTDKDYPVKDFCQRLKEFSEK 224
A + G + + G + ++ + D+ Q + +
Sbjct: 212 DLEPIIEASQKVAKIAKSLIALGIDLRFFDVGGGIGVSYENEETIKLYDYAQGILNALQG 271
Query: 225 YSVQIYLEPGEAIVTNTTTLNTTVLDISENI-KNLVIVDSSVEAHVPDYLLYQESATIYP 283
+ I EPG +IV + L T VL + K VIVD+ + + L + + A
Sbjct: 272 LDLTIICEPGRSIVAESGELITQVLYEKKAQNKRFVIVDAGMNDFLRPSLYHAKHAIRVI 331
Query: 284 NTG----PYTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNINRKNWFNGINM 339
V G C + D F + ++ GD+I+ E V Y + + +N
Sbjct: 332 TPSKGREISPCDVVGPVCESSDTFLKDAHLPELEPGDKIAIEKVGAYGSSMASQYNSRPK 391
Query: 340 PTIAVKNVDGTIKAIRE-FSYNDYYNN 365
D I+ IR+ + D +
Sbjct: 392 LLELALE-DHKIRVIRKREALEDLWRL 417
>2p3e_A Diaminopimelate decarboxylase; southeast collaboratory for
structural genomics, riken spring-8 center, riken
genomic sciences center; 1.99A {Aquifex aeolicus VF5}
Length = 420
Score = 113 bits (282), Expect = 8e-26
Identities = 69/386 (17%), Positives = 131/386 (33%), Gaps = 27/386 (6%)
Query: 4 TPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYEV 63
TP Y+ + + Y + + A+K + L + G S E+
Sbjct: 34 TPLYVYSSNFIKERFEA--YRKAFPDALICYAVKANFNPHLVKLLGELGAGADIVSGGEL 91
Query: 64 MLGHEKFGGETH---AYNVAYKDCEIDAVLSNCDTIIFNTVSQLNKFKDKAQKLHK--KI 118
L + A + DAV S + +L+ + A KL K +I
Sbjct: 92 YLAKKAGIPPERIVYAGVGKTEKELTDAVDSEILMFNVESRQELDVLNEIAGKLGKKARI 151
Query: 119 GLRINPSVSYSKFILADPNRPFSRLGEKCKDKIES-----EIKNVNGLMFHNNCENKSF- 172
+R+NP V S+ G ++ + +++N+ + H + ++
Sbjct: 152 AIRVNPDVDPKTHPYIATGMQKSKFGVDIREAQKEYEYASKLENLEIVGIHCHIGSQILD 211
Query: 173 --LCFSAMLKNIEKEFGHFITQIEWISLGGGI------HFTDKDYPVKDFCQRLKEFSEK 224
A+ K + + L G DK+ +D LK+ E
Sbjct: 212 ISPYREAVEKVVSLYESLTQKGFDIKYLDIGGGLGIKYKPEDKEPAPQDLADLLKDLLEN 271
Query: 225 YSVQIYLEPGEAIVTNTTTLNTTVLDISEN-IKNLVIVDSSVEAHVPDYLLYQESATIY- 282
+I LEPG +I+ N L T V + + K+ +IVD+ + + + I
Sbjct: 272 VKAKIILEPGRSIMGNAGILITQVQFLKDKGSKHFIIVDAGMNDLIRPSIYNAYHHIIPV 331
Query: 283 --PNTGPYTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNINRKNWFNGINMP 340
A + G C GD + V+ G+ ++ Y + +N
Sbjct: 332 ETKERKKVVADIVGPICETGDFLALDREIEEVQRGEYLAVLSAGAYGFAMSSHYNMRPRA 391
Query: 341 TIAVKNVDGTIKAIREF-SYNDYYNN 365
+ +G++K IR+ +Y+
Sbjct: 392 AEVLVE-NGSVKLIRKRENYDYIVEP 416
>1knw_A Diaminopimelate decarboxylase; pyridoxal-phosphate,
decarboxylation, lysine, TIM-barrel, lyase; HET: PLP
MES; 2.10A {Escherichia coli} SCOP: b.49.2.3 c.1.6.1
PDB: 1ko0_A*
Length = 425
Score = 110 bits (275), Expect = 5e-25
Identities = 57/402 (14%), Positives = 123/402 (30%), Gaps = 50/402 (12%)
Query: 4 TPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYEV 63
P ++ D Q + + + A K + + + + S SL E+
Sbjct: 26 CPVWVYDAQIIRRQIAAL-----KQFDVVRFAQKACSNIHILRLMREQGVKVDSVSLGEI 80
Query: 64 ML------GHEKFGGETHAYNVAYKDCEIDAVLSNCDTIIFNTVSQLNKFKDKAQKLHKK 117
+ + ++ V + +V L++ + +
Sbjct: 81 ERALAAGYNPQTHPDDIVFTADVIDQATLERVSELQIPVNAGSVDMLDQLGQVSPG--HR 138
Query: 118 IGLRINPSVSYSKFILADPNRPFSRLG------EKCKDKIESEIKNVNGLMFH--NNCEN 169
+ LR+NP + + S+ G D I+ + G+ H + +
Sbjct: 139 VWLRVNPGFGHGHSQKTNTGGENSKHGIWYTDLPAALDVIQRHHLQLVGIHMHIGSGVDY 198
Query: 170 KSFLCFSAMLKNIEKEFGHFITQIEWISLGGGIHF-------TDKDYPVKDFCQRLKEFS 222
+ EFG + I + T+ Y + + +
Sbjct: 199 AHLEQVCGAMVRQVIEFGQDLQAISAGGGLSVPYQQGEEAVDTEHYYGLWNAAREQIARH 258
Query: 223 EKYSVQIYLEPGEAIVTNTTTLNTTVLDISEN-IKNLVIVDSSVEAHVPDYLLYQESATI 281
+ V++ +EPG +V + L T V + + ++ V+VD+ + +Y I
Sbjct: 259 LGHPVKLEIEPGRFLVAQSGVLITQVRSVKQMGSRHFVLVDAGF-NDLMRPAMYGSYHHI 317
Query: 282 YP---------NTGPYTAMVCGRSCLAGDIFGEFHFEK-------PVKIGDRISFEDVAG 325
+ +V G C +GD+F + VK GD + D
Sbjct: 318 SALAADGRSLEHAPTVETVVAGPLCESGDVFTQQEGGNVETRALPEVKAGDYLVLHDTGA 377
Query: 326 YNINRKNWFNGINMP-TIAVKNVDGTIKAIRE-FSYNDYYNN 365
Y + + +N + + +G + IR + +
Sbjct: 378 YGASMSSNYNSRPLLPEVLFD--NGQARLIRRRQTIEELLAL 417
>2o0t_A Diaminopimelate decarboxylase; PLP binding enzyme, lysine
biosynthesis, structural genomics, TB structural
genomics consortium; HET: LLP; 2.33A {Mycobacterium
tuberculosis H37RV} PDB: 1hkv_A* 1hkw_A
Length = 467
Score = 105 bits (261), Expect = 2e-23
Identities = 49/408 (12%), Positives = 115/408 (28%), Gaps = 49/408 (12%)
Query: 4 TPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYEV 63
TP ++ID+ + +G + A K F + +++ + E+
Sbjct: 42 TPLFVIDEDDFRSRCR-ETAAAFGSGANVHYAAKAFLCSEVARWISEEGLCLDVCTGGEL 100
Query: 64 MLGHEKFGGETHAYNVAYKDCEIDAVLSNCDTIIFNTVSQLNKFKDKAQKLHKKIGLRIN 123
+ + + + V + + ++ + + G+ +
Sbjct: 101 AVALHASFPPERITLHGNNKSVSELTAAVKAGVGHIVVDSMTEI-ERLDAIAGEAGIVQD 159
Query: 124 PSVSYSKFILADPNRPFSRLGEKCKDKIESEI---------------KNVNGLMFHNNCE 168
V + + A + S E K + + GL H +
Sbjct: 160 VLVRLTVGVEAHTHEFISTAHEDQKFGLSVASGAAMAAVRRVFATDHLRLVGLHSHIGSQ 219
Query: 169 NKSFLCFSA-----------MLKNIEKEFGHFITQIEWISLGGGIHFTDKDY-------- 209
F ++ E I ++ G + D
Sbjct: 220 IFDVDGFELAAHRVIGLLRDVVGEFGPEKTAQIATVDLGGGLGISYLPSDDPPPIAELAA 279
Query: 210 PVKDFCQRLKEFSEKYSVQIYLEPGEAIVTNTTTLNTTVLDISENI------KNLVIVDS 263
+ + ++ +EPG AI T V + + + V VD
Sbjct: 280 KLGTIVSDESTAVGLPTPKLVVEPGRAIAGPGTITLYEVGTVKDVDVSATAHRRYVSVDG 339
Query: 264 SVEAHVPDYLLYQESATIY----PNTGPYTAMVCGRSCLAGDIFGE-FHFEKPVKIGDRI 318
+ ++ L + + P A + G+ C +GDI ++ GD +
Sbjct: 340 GMSDNIRTALYGAQYDVRLVSRVSDAPPVPARLVGKHCESGDIIVRDTWVPDDIRPGDLV 399
Query: 319 SFEDVAGYNINRKNWFNGINMPTIAVKNVDGTIKAIRE-FSYNDYYNN 365
+ Y + + +N + P + + G + + + +D +
Sbjct: 400 AVAATGAYCYSLSSRYNMVGRPAVVAVH-AGNARLVLRRETVDDLLSL 446
>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 = 99.7 bits (247), Expect = 9e-22
Identities = 66/397 (16%), Positives = 132/397 (33%), Gaps = 35/397 (8%)
Query: 4 TPYYLIDKQKLLNNLDT------ALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTS 57
TP Y++ ++++ N + + A K A + L + G
Sbjct: 30 TPLYVMSEEQIKINYNRYIEAFKRWEEETGKEFIVAYAYKANANLAITRLLAKLGCGADV 89
Query: 58 SSLYEVMLGHEKF---GGETHAYNVAYKDCEIDAVLSNCDTIIFNTVSQLNKFKDKAQKL 114
S E+ + N K+ I + +N +++S+L + A++L
Sbjct: 90 VSGGELYIAKLSNVPSKKIVFNGNCKTKEEIIMGIEANIRAFNVDSISELILINETAKEL 149
Query: 115 HKKIGLRINPSVSYS--------------KFILADPNRPFSRLGEKCKDKIESEIKNVNG 160
+ + + + + KF L + + + + + V+
Sbjct: 150 GETANVAFRINPNVNPKTHPKISTGLKKNKFGLDVESGIAMKAIKMALEMEYVNVVGVHC 209
Query: 161 LMFHNNCENKSFLCFSAMLKNIEKEFGHFITQIEWISLGGGI---------HFTDKDYPV 211
+ + F+ + + + E +IE ++LGGG+ T KD
Sbjct: 210 HIGSQLTDISPFIEETRKVMDFVVELKEEGIEIEDVNLGGGLGIPYYKDKQIPTQKDLAD 269
Query: 212 KDFCQRLKEFSEKYSVQIYLEPGEAIVTNTTTLNTTVLDISENIKNL-VIVDSSVEAHVP 270
LK + + LEPG ++V L V I E V++D+ + +
Sbjct: 270 AIINTMLKYKDKVEMPNLILEPGRSLVATAGYLLGKVHHIKETPVTKWVMIDAGMNDMMR 329
Query: 271 DYLLYQESATIY--PNTGPYTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNI 328
+ I + G C + D+FG V++GD ++ DV Y I
Sbjct: 330 PAMYEAYHHIINCKVKNEKEVVSIAGGLCESSDVFGRDRELDKVEVGDVLAIFDVGAYGI 389
Query: 329 NRKNWFNGINMPTIAVKNVDGTIKAIREFSYNDYYNN 365
+ N +N P + + + G +Y D
Sbjct: 390 SMANNYNARGRPRMVLTSKKGVFLIRERETYADLIAK 426
>2oo0_A ODC, ornithine decarboxylase; beta-alpha barrel, sheet, lyase; HET:
PLP; 1.90A {Homo sapiens}
Length = 471
Score = 94.2 bits (233), Expect = 5e-20
Identities = 69/392 (17%), Positives = 124/392 (31%), Gaps = 35/392 (8%)
Query: 3 KTPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYE 62
K +Y+ D +L +++ V A+KC + + TL G +S E
Sbjct: 47 KDAFYVADLGDILKKHLR--WLKALPRVTPFYAVKCNDSKAIVKTLAATGTGFDCASKTE 104
Query: 63 VMLGHE-KFGGETHAYNVAYKD-CEIDAVLSNCDTIIFNTVSQLNKFKDKAQKLHKKIGL 120
+ L E Y K +I +N ++ S++ K K+ L
Sbjct: 105 IQLVQSLGVPPERIIYANPCKQVSQIKYAANNGVQMM-TFDSEVELMKVARAHPKAKLVL 163
Query: 121 RINPSVSYSKFILADPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNCENKSFLCFSAMLK 180
RI S + L+ R ++ + +V G+ FH F +
Sbjct: 164 RIATDDSKAVCRLSVKFGATLRTSRLLLERAKELNIDVVGVSFHVGSGCTDPETFVQAIS 223
Query: 181 NIEKEF------GHFITQIEWISLGGGIHFTDKD---YPVKDFCQRLKEFSEKYSVQIYL 231
+ F G + ++ G K F V+I
Sbjct: 224 DARCVFDMGAEVGFSMYLLDIGGGFPGSEDVKLKFEEITGVINPALDKYFPSDSGVRIIA 283
Query: 232 EPGEAIVTNTTTLNTTVLDISENIKNLVIVDSSVEAHVPDYLLYQESAT----------- 280
EPG V + TL ++ +K D E+ ++ Y
Sbjct: 284 EPGRYYVASAFTLAVNIIAKKIVLKEQTGSDDEDESSEQTFMYYVNDGVYGSFNCILYDH 343
Query: 281 ----------IYPNTGPYTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNINR 330
P+ Y++ + G +C D E + +GD + FE++ Y +
Sbjct: 344 AHVKPLLQKRPKPDEKYYSSSIWGPTCDGLDRIVERCDLPEMHVGDWMLFENMGAYTVAA 403
Query: 331 KNWFNGINMPTIAVKNVDGTIKAIREFSYNDY 362
+ FNG PTI + +++F D+
Sbjct: 404 ASTFNGFQRPTIYYVMSGPAWQLMQQFQNPDF 435
>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 = 88.0 bits (217), Expect = 3e-18
Identities = 56/385 (14%), Positives = 115/385 (29%), Gaps = 35/385 (9%)
Query: 3 KTPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYE 62
K +++ D K++ + A +K +KC + + + L G SS E
Sbjct: 37 KNAFFVGDLGKIVKKHSQ--WQTVVAQIKPFYTVKCNSTPAVLEILAALGTGFACSSKNE 94
Query: 63 VMLGHE-KFGGETHAYNVAYKDCEI--DAVLSNCDTIIFNTVSQLNKFKDKAQKLHKKIG 119
+ L E E + K A + + + +L K + K+
Sbjct: 95 MALVQELGVSPENIIFTSPCKQVSQIKYAAKVGVNIMTCDNEIELKKIARNHP--NAKVL 152
Query: 120 LRINPSVSYSKFILADPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNCENKSFLCFSAML 179
L I + + + + + G+ FH + K + + L
Sbjct: 153 LHIATEDNIGGEDGNMKFGTTLKNCRHLLECAKELDVQIIGVKFHVSSACKEYQVYVHAL 212
Query: 180 KNIE------KEFGHFITQIEWISLGGGIHFTDKDYPVKDFCQRLKEFSEKYSVQIYLEP 233
+ EFG + ++ G ++ F E +QI EP
Sbjct: 213 SDARCVFDMAGEFGFTMNMLDIGGGFTGTEIQLEEVNHVISPLLDIYFPEGSGIQIISEP 272
Query: 234 GEAIVTNTTTLNTTVLDISENIKNLVIVDSSVEAHVPDYLLYQESATIYPNTGP------ 287
G V++ TL ++ + +Y + +Y +
Sbjct: 273 GSYYVSSAFTLAVNIIAKKVVENDKFSSGVEKNGSDEPAFVYYMNDGVYGSFASKLSEDL 332
Query: 288 ----------------YTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNINRK 331
+T+ + G SC D E + +GD + F+++ + +
Sbjct: 333 NTIPEVHKKYKEDEPLFTSSLWGPSCDELDQIVESCLLPELNVGDWLIFDNMGADSFHEP 392
Query: 332 NWFNGINMPTIAVKNVDGTIKAIRE 356
+ FN P I +++
Sbjct: 393 SAFNDFQRPAIYFMMSFSDWYEMQD 417
>7odc_A Protein (ornithine decarboxylase); pyridoxal-5'-phosphate, PLP,
group IV decarboxylase, polyamines, 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 = 84.9 bits (209), Expect = 2e-17
Identities = 66/386 (17%), Positives = 122/386 (31%), Gaps = 35/386 (9%)
Query: 3 KTPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYE 62
K +Y+ D +L +++ V A+KC + + TL G +S E
Sbjct: 37 KDAFYVADLGDILKKHLR--WLKALPRVTPFYAVKCNDSRAIVSTLAAIGTGFDCASKTE 94
Query: 63 VMLGHE-KFGGETHAYNVAYK-DCEIDAVLSNCDTIIFNTVSQLNKFKDKAQKLHKKIGL 120
+ L E Y K +I SN ++ ++ K K+ L
Sbjct: 95 IQLVQGLGVPAERVIYANPCKQVSQIKYAASNGVQMMTFDS-EIELMKVARAHPKAKLVL 153
Query: 121 RINPSVSYSKFILADPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNCENKSFLCFSAMLK 180
RI S + L+ + ++ + +V G+ FH F +
Sbjct: 154 RIATDDSKAVCRLSVKFGATLKTSRLLLERAKELNIDVIGVSFHVGSGCTDPDTFVQAVS 213
Query: 181 N----IEKEFGHFITQIEWISLGGGIHFTDKDYPVKDF-----CQRLKEFSEKYSVQIYL 231
+ + + GG D ++ K F V+I
Sbjct: 214 DARCVFDMATEVGFSMHLLDIGGGFPGSEDTKLKFEEITSVINPALDKYFPSDSGVRIIA 273
Query: 232 EPGEAIVTNTTTLNTTVLDISENIKNLVIVDSSVEAHVPDYLLYQESA-------TIY-- 282
EPG V + TL ++ K D E++ ++ Y +Y
Sbjct: 274 EPGRYYVASAFTLAVNIIAKKTVWKEQPGSDDEDESNEQTFMYYVNDGVYGSFNCILYDH 333
Query: 283 ------------PNTGPYTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNINR 330
P+ Y++ + G +C D E + +GD + FE++ Y +
Sbjct: 334 AHVKALLQKRPKPDEKYYSSSIWGPTCDGLDRIVERCNLPEMHVGDWMLFENMGAYTVAA 393
Query: 331 KNWFNGINMPTIAVKNVDGTIKAIRE 356
+ FNG P I + +++
Sbjct: 394 ASTFNGFQRPNIYYVMSRPMWQLMKQ 419
>2plj_A Lysine/ornithine decarboxylase; type IV decarboxylase, beta/alpha
barrel, beta barrel, lyase; HET: P3T; 1.70A {Vibrio
vulnificus CMCP6} PDB: 2plk_A*
Length = 419
Score = 82.7 bits (203), Expect = 1e-16
Identities = 62/366 (16%), Positives = 117/366 (31%), Gaps = 17/366 (4%)
Query: 4 TPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYEV 63
P L+D + V L ALK + TL ++ EV
Sbjct: 55 APLLLLDCDVIRQQY--RALKNALPNVTLHYALKPLPHPVVVRTLLAEGASFDLATTGEV 112
Query: 64 MLGHE-KFGGETHAYNVAYKD--CEIDAVLSNCDTIIFNTVSQLNKFKDKAQKLHKKIGL 120
L + + K DA+ C+ + + +++L KFK + + L
Sbjct: 113 ELVASEGVPADLTIHTHPIKRDADIRDALAYGCNVFVVDNLNELEKFKAYRDDVELLVRL 172
Query: 121 RINPSVSYSKFILADPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNCEN--KSFLCFSAM 178
S +++ P L K + + N K
Sbjct: 173 SFRNSEAFADLSKKFGCSPEQALVIIETAKEWNIRIKGLSFHVGSQTTNPNKYVEAIHTC 232
Query: 179 LKNIEKEFGHFITQIEWISLGGG--IHFTDKDYPVKDFCQRLKEFSEKY--SVQIYLEPG 234
+E+ + + + +GGG +++T + P+ FC + E +V + EPG
Sbjct: 233 RHVMEQVVERGLPALSTLDIGGGFPVNYTQQVMPIDQFCAPINEALSLLPETVHVLAEPG 292
Query: 235 EAIVTNTTTLNTTVLDISENIKNLVIVDSSVEAHVPDYLLYQES----ATIYPNTGPYTA 290
I T +V+ +E + L++ ++ TI +
Sbjct: 293 RFICAPAVTSVASVMGQAEREGQIWYYLDDGIYGSFSGLMFDDARYPLTTIKQGGELIPS 352
Query: 291 MVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNINRKNWFNGINMP-TIAVKN-VD 348
++ G +C + D+ E + GD + + Y FN TIA+ V
Sbjct: 353 VLSGPTCDSVDVIAENILLPKLNNGDLVIGRTMGAYTSATATDFNFFKRAQTIALNEFVA 412
Query: 349 GTIKAI 354
+ + I
Sbjct: 413 SSERMI 418
>2j66_A BTRK, decarboxylase; butirosin, AHBA biosynthesis, lyase; HET: PLP;
1.65A {Bacillus circulans}
Length = 428
Score = 81.3 bits (199), Expect = 3e-16
Identities = 49/402 (12%), Positives = 110/402 (27%), Gaps = 43/402 (10%)
Query: 4 TPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYEV 63
TP+YL D + + L R N ++ L+LK + Q+ G +S E+
Sbjct: 17 TPFYLYDGDFIEAHYR-QLRSRTNPAIQFYLSLKANNNIHLAKLFRQWGLGVEVASAGEL 75
Query: 64 MLGHEKFGGETHAYNVAYKDCEIDAVLSNCDTIIFNTVSQLNKFKDKAQKLHKKIGLRIN 123
L G + + + + I+ +++ + ++L +K
Sbjct: 76 ALAR-HAGFSAENIIFSGPGKKRSELEIAVQSGIYCIIAESVEELFYIEELAEKENKTAR 134
Query: 124 PSVSY---------------SKFILADPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNCE 168
++ + + + ++ ++ N
Sbjct: 135 VAIRINPDKSFGSTAIKMGGVPRQFGMDESMLDAVMDAVRSLQFTKFIGIHVYTGTQNLN 194
Query: 169 NKSFLCFSAMLKNIEKEFGHFI-TQIEWISLGGGIHFTDKDYPVKDFCQRLKE------- 220
S + ++ + E I+LGGG + ++
Sbjct: 195 TDSIIESMKYTVDLGRNIYERYGIVCECINLGGGFGVPYFSHEKALDIGKITRTVSDYVQ 254
Query: 221 ---FSEKYSVQIYLEPGEAIVTNTTTLNTTVLDISENIKNLVIVDSS------VEAHVPD 271
+ +E G ++ T VL + + ++
Sbjct: 255 EARDTRFPQTTFIIESGRYLLAQAAVYVTEVLYRKASKGEVFVIVDGGMHHHAASTFRGR 314
Query: 272 YLLYQESATIYPNTGP------YTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAG 325
+ P + G C D G+ + GD + +
Sbjct: 315 SMRSNYPMEYIPVREDSGRRELEKVTIAGPLCTPEDCLGKDVHVPALYPGDLVCVLNSGA 374
Query: 326 YNIN-RKNWFNGINMPTIAVKNVDGTIKAIRE-FSYNDYYNN 365
Y ++ F G P +K +G+ + IR + +D
Sbjct: 375 YGLSFSPVHFLGHPTPIEILKR-NGSYELIRRKGTADDIVAT 415
>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 = 70.0 bits (170), Expect = 7e-13
Identities = 51/356 (14%), Positives = 105/356 (29%), Gaps = 18/356 (5%)
Query: 3 KTPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQYMDGTTSSSLYE 62
+Y+ + + + +D + V A+KC + T+ +S E
Sbjct: 16 TKSFYVSSPKIVEDLIDQ--WTILFPRVTPHYAVKCNNDEVLLKTMCDKNVNFDCASSSE 73
Query: 63 VMLGHE-KFGGETHAYNVAYKDCEIDAVLSNCDTIIFNTVSQLNKFKDKAQKLHKKIGLR 121
+ + + K + + I S K + K+ LR
Sbjct: 74 IKKVIQIGVSPSRIIFAHTMKTIDDLIFAKDQGVDIATFDSSFELDKIHTYHPNCKMILR 133
Query: 122 INPSVSYSKFILADPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNCENKSFLCFSAML-- 179
I + L + + + V G+ FH +++ + +
Sbjct: 134 IRCDDPNATVQLGNKFGANEDEIRHLLEYAKQLDIEVIGISFHVGSGSRNPEAYYRAIKS 193
Query: 180 -KNIEKEFGHFITQIEWISLGGGIH-----FTDKDYPVKDFCQRLKEFSEKYSVQIYLEP 233
K E + + +GGG+H Y +K+F + +V I EP
Sbjct: 194 SKEAFNEAISVGHKPYILDIGGGLHADIDEGELSTYMSDYINDAIKDFFPEDTVTIVAEP 253
Query: 234 GEAIVTNTTTLNTTVLDISENIKNLVIVDSSVEAHVPDYLLYQESATIYP-------NTG 286
G + + L T V+ + +++++S +
Sbjct: 254 GRFFAEHYSVLATQVIGKRVRDGLYEYFFNESTYGGFSNVIFEKSVPTPQLLRDVPDDEE 313
Query: 287 PYTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNINRKNWFNGINMPTI 342
+++ G +C D+ + IGD + F Y FNG +
Sbjct: 314 YVPSVLYGCTCDGVDVINHNVALPELHIGDWVYFPSWGAYTNVLTTSFNGFGEYDV 369
>3nzq_A ADC, biosynthetic arginine decarboxylase; alpha-beta protein,
structural genomics, PSI-2, protein STRU initiative;
3.10A {Escherichia coli}
Length = 666
Score = 52.7 bits (126), Expect = 1e-07
Identities = 36/299 (12%), Positives = 95/299 (31%), Gaps = 43/299 (14%)
Query: 35 ALKCFAAWGMFDTLNQY--MDGTTSSSLYEVMLGHEKFG-GETHAYNVAYKDCE------ 85
+K + ++L G + S E+M G + YKD E
Sbjct: 125 PIKVNQHRRVIESLIHSGEPLGLEAGSKAELMAVLAHAGMTRSVIVCNGYKDREYIRLAL 184
Query: 86 IDAVLSNCDTIIFNTVSQLNKFKDKAQKLHKK--IGLRINPSV---------SYSKFILA 134
I + + ++ +S++ D+A++L+ +G+R + K
Sbjct: 185 IGEKMGHKVYLVIEKMSEIAIVLDEAERLNVVPRLGVRARLASQGSGKWQSSGGEKSKFG 244
Query: 135 DPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNCENKSFLCFSAMLKNIEKEFGHFIT--- 191
+L E ++ + ++ L FH + + + ++ + +
Sbjct: 245 LAATQVLQLVETLREA--GRLDSLQLLHFHLGSQMANIRDIATGVRESARFYVELHKLGV 302
Query: 192 QIEWISLGGGIH--FTDKDYP------------VKDFCQRLKEFSEKYSV---QIYLEPG 234
I+ +GGG+ + + + + E+ + + E G
Sbjct: 303 NIQCFDVGGGLGVDYEGTRSQSDCSVNYGLNEYANNIIWAIGDACEENGLPHPTVITESG 362
Query: 235 EAIVTNTTTLNTTVLDISENIKNLVIVDSSVEAHVPDYLLYQESATIYPNTGPYTAMVC 293
A+ + T L + ++ + N + + +A +++ ++ +
Sbjct: 363 RAVTAHHTVLVSNIIGVERNEYTVPTAPAE-DAPRALQSMWETWQEMHEPGTRRSLREW 420
>3nzp_A Arginine decarboxylase; alpha-beta protein, structural genomics,
PSI-2, protein STRU initiative; HET: PLP; 3.00A
{Campylobacter jejuni subsp}
Length = 619
Score = 46.6 bits (110), Expect = 9e-06
Identities = 48/310 (15%), Positives = 91/310 (29%), Gaps = 48/310 (15%)
Query: 2 IKTPYYLIDKQKLLNNLDTA--------LYIRKNAGVKLLLALKCFAAWGMFDTL----N 49
K P L + ++ G + LK G L
Sbjct: 43 YKGPLLLRFPHLIQKQIENIYGNFNKARKEFGYKGGFNAVYPLKVNQYPGFVKNLVKLGK 102
Query: 50 QYMDGTTSSSLYEVMLGHE-KFGGETHAYNVAYKDCEID-----AVLSNCDTIIFNTVSQ 103
Y G + S E++L G N I+ A + + T+ +++
Sbjct: 103 DYNYGLEAGSKAELLLAMAYNNEGAPITVNGFKDRELINIGFIAAEMGHNITLTIEGLNE 162
Query: 104 LNKFKDKAQKLHKK---IGLRINPSVSY------SKFILADPNRPFSRLGEKCKDKIESE 154
L D A++ K IGLR+ + S I + + L E E++
Sbjct: 163 LEAIIDIAKERFKPKPNIGLRVRLHSAGVGIWAKSGGINSKFGLTSTELIEAVNLLKENK 222
Query: 155 -IKNVNGLMFHNNCENKSFLCFSAMLKN----IEKEFGHFITQIEWISLGGG--IHFTDK 207
++ + FH + L + ++ I+LGGG + ++
Sbjct: 223 LLEQFTMIHFHLGSQITEIHPLKKALNEAGNIYTELRKMGAKNLKAINLGGGLAVEYSQF 282
Query: 208 DYP-------------VKDFCQRLKEFSEKYSVQIYLEPGEAIVTNTTTLNTTVLDISEN 254
V + + E + I++E G + N L VL++
Sbjct: 283 KNEKSRNYTLREYANDVVFILKNIAEQKKDLEPDIFIESGRFVAANHAVLIAPVLELFSQ 342
Query: 255 -IKNLVIVDS 263
++
Sbjct: 343 EYAENKLILK 352
>3n2o_A ADC, biosynthetic arginine decarboxylase; lyase; HET: PLP; 2.30A
{Vibrio vulnificus}
Length = 648
Score = 46.2 bits (109), Expect = 1e-05
Identities = 27/236 (11%), Positives = 72/236 (30%), Gaps = 34/236 (14%)
Query: 89 VLSNCDTIIFNTVSQLNKFKDKAQKLHKK--IGLRINPSVS-YSKFILADPNRPFSRLGE 145
L + I+ +S+L+ +A+ L +G+RI + K+ + S+ G
Sbjct: 171 KLGHKVFIVLEKMSELDLVLREAKSLGVTPRLGIRIRLASQGAGKWQAS--GGEKSKFGL 228
Query: 146 KCKDKIE--------SEIKNVNGLMFHNNCENKSFLCFSAMLKNIEKEFGHFITQ---IE 194
+ +++ + + FH + + + + + T I
Sbjct: 229 SASQVLNVISRLKKENQLDTLQLVHFHLGSQMANIRDVRNGVNESARFYCELRTLGANIT 288
Query: 195 WISLGGGIH--------------FTDKDYPVKDFCQRLKEFSEKYSV---QIYLEPGEAI 237
+ +GGG+ ++ + + + Y I E G ++
Sbjct: 289 YFDVGGGLAIDYDGTRSQSSNSMNYGLVEYARNIVNTVGDVCKDYKQPMPVIISESGRSL 348
Query: 238 VTNTTTLNTTVLDISENIKNLVIVDSSVEAHVPDYLLYQESATIYPNTGPYTAMVC 293
+ L + V+ V + + +++ ++ T +
Sbjct: 349 TAHHAVLISNVIGTETYKPETVTEPEEDFPLLLNN-MWRSWLNLHNGTDARALIEI 403
>3llx_A Predicted amino acid aldolase or racemase; structural genomics,
joint center for structural genomics, JCSG, protein
structure initiative; HET: LLP TRS; 1.50A {Idiomarina
loihiensis}
Length = 376
Score = 35.3 bits (80), Expect = 0.023
Identities = 35/209 (16%), Positives = 63/209 (30%), Gaps = 9/209 (4%)
Query: 4 TPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQY-MDGTTSSSLYE 62
TPY LID+ KL +N++ ++ G L LK L T S+L E
Sbjct: 14 TPYLLIDEAKLKSNINYLKQRVESLGSHLRPHLKTLRTLEAAGYLLDSKSAPATVSTLAE 73
Query: 63 VMLGHEK-FGGETHAYNVAYKDCEIDAVLSNCDTIIFNTVS---QLNKFKDKAQKLHKKI 118
+ + +A +A + A L + + Q D A + +
Sbjct: 74 AEAYAKAGYTDLLYAVGIAPAKLKRVAALRQQGINLHILLDNITQAQAVVDYAAEFGQDF 133
Query: 119 GLRINPSVSYSKFILADPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNCEN--KSFLC-F 175
+ I + + P+ K + + + G + N E K+F
Sbjct: 134 SVFIEIDSDDHRGGI-KPSDSKLLTIAKTLGEHFTGLMTHAGGSYACNTEQGLKNFAKQE 192
Query: 176 SAMLKNIEKEFGHFITQIEWISLGGGIHF 204
++ S+G
Sbjct: 193 CDAVRIARNNLETAGIHCAITSVGSTPTA 221
>3gwq_A D-serine deaminase; YP_556991.1, structural genomics, joint center
for structural genomics, JCSG, protein structure
initiative; HET: MSE; 2.00A {Burkholderia xenovorans
LB400}
Length = 426
Score = 31.8 bits (71), Expect = 0.26
Identities = 42/356 (11%), Positives = 98/356 (27%), Gaps = 42/356 (11%)
Query: 2 IKTPYYLIDKQKLLNNLDTALYIRKNAGVKLLLALKCFAAWGMFDTLNQY-MDGTTSSSL 60
+ P ++ ++ +NL GVKL K A +F + G T ++
Sbjct: 44 VSLPAAVLYADRVEHNLKWMQAFVAEYGVKLAPHGKTTMAPQLFRRQLETGAWGITLATA 103
Query: 61 YEV-MLGHEKFGGETHAYNVAYKDCEIDAVLSNCDTIIFNTVS-----QLNKFKDKAQKL 114
++V H A + + + D + + + + +
Sbjct: 104 HQVRAAYHGGVSRVLMANQLVGRRNMMMVAELLSDPEFEFFCLVDSVEGVEQLGEFFKSV 163
Query: 115 HKKIGLRINPSVSYSKFILADPNRPFSRLGEKCKDKIESEIKNVNGLMFHNNC-----EN 169
+K++ + + V + + D + + L + + G+ + E
Sbjct: 164 NKQLQVLLELGVPGGRTGVRDAAQRNAVL---EAITRYPDTLKLAGVELYEGVLKEEHEV 220
Query: 170 KSFLCFSAMLKNIEKEFGHFITQIEWISLGGGIHFT--------------------DKDY 209
+ FL + + E F +S G + Y
Sbjct: 221 REFLQSAVAVTRELVEQERFARAPAVLSGAGSAWYDVVAEEFVKASETGKVEVVLRPGCY 280
Query: 210 PVKDFCQRLKEFSEKYSVQIYLEPGEAIVTNTTTLNTTVLDISENIKNLVIVDSSVEAHV 269
D K ++ ++ + + L V S + I+
Sbjct: 281 LTHDVGIYRKAQTDIFARNPVAKKMGEGLLPALQLWAYV--QSIPEPDRAIIGLGKRDSA 338
Query: 270 PDYLLYQESATIYPNTGPYTAMVCGRSCLAGDIFGEFHF-----EKPVKIGDRISF 320
D + + + P + + + + +K+GD I+F
Sbjct: 339 FDAGMPEPARHYRPGNEAPRDIAASEGWEIFGLMDQHAYLRIPAGADLKVGDMIAF 394
>1z5h_A Tricorn protease interacting factor F3; zinc aminopeptidase,
gluzicins, superhelix, hydrolase; 2.30A {Thermoplasma
acidophilum} PDB: 1z1w_A
Length = 780
Score = 29.9 bits (66), Expect = 0.82
Identities = 11/67 (16%), Positives = 22/67 (32%)
Query: 223 EKYSVQIYLEPGEAIVTNTTTLNTTVLDISENIKNLVIVDSSVEAHVPDYLLYQESATIY 282
EKY + + + + T T+ DI + L I V + ++
Sbjct: 4 EKYDLTLDFDIQKRTFNGTETITADAGDIVLDAVGLQINWMKVNGRDTAFTYDGQTVRAP 63
Query: 283 PNTGPYT 289
++ P
Sbjct: 64 GDSQPQK 70
>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 = 29.6 bits (66), Expect = 1.0
Identities = 19/133 (14%), Positives = 34/133 (25%), Gaps = 13/133 (9%)
Query: 202 IHFTDKDYPVKDFCQRLKEFSEKYSVQIYL--EPGEAIVTNTTTLNTTVLDISENIKNLV 259
+H + P + L EKY +I N ++ + SE
Sbjct: 30 LHLRKPETPAMYSERLLTLIPEKYHRRIVTHEHFYLKEEFNLMGIHLNARNPSEPHDYAG 89
Query: 260 IVDSSV--------EAHVPDYLLYQESATIYPNTGPYTAMVCGRSCLAGDIFGEFHFEKP 311
V S H DY+ S + L + +
Sbjct: 90 HVSCSCHSVEEVKNRKHFYDYVFM--SPIYDSISKVNYYSTYTAEELR-EAQKAKIIDSK 146
Query: 312 VKIGDRISFEDVA 324
V I+ +++
Sbjct: 147 VMALGGINEDNLL 159
>1z7d_A Ornithine aminotransferase; structural genomics consortium, SGC,
malaria; 2.10A {Plasmodium yoelii yoelii} SCOP: c.67.1.4
Length = 433
Score = 28.5 bits (63), Expect = 2.1
Identities = 14/59 (23%), Positives = 20/59 (33%), Gaps = 1/59 (1%)
Query: 162 MFHNNCENKSFLCFSAMLKNIEKEFGHFITQIEWISLGGGIHFTDKDYPVKDFCQRLKE 220
K F LK K+ + + L I F ++ V D C +LKE
Sbjct: 332 EKLCENAEKLGGPFLENLKRELKDSKI-VRDVRGKGLLCAIEFKNELVNVLDICLKLKE 389
>3kh8_A MAOC-like dehydratase; hot DOG domain, lyase; 2.00A {Phytophthora
capsici}
Length = 332
Score = 28.2 bits (62), Expect = 2.9
Identities = 7/41 (17%), Positives = 12/41 (29%), Gaps = 4/41 (9%)
Query: 285 TGPYTAMVCGRSCLAGDI--FGEFH--FEKPVKIGDRISFE 321
+ + + GD+ F F P G+ I
Sbjct: 254 SMGVASRALFKQFCGGDVARFKSIRVRFSSPCFPGETIQTR 294
>2zfy_A Ubiquitin thioesterase OTUB1; otubain, structural genomics,
structural genomics consortium, SGC, alternative
splicing, hydrolase, immune response; 1.69A {Homo
sapiens}
Length = 234
Score = 27.6 bits (61), Expect = 4.8
Identities = 37/189 (19%), Positives = 67/189 (35%), Gaps = 37/189 (19%)
Query: 96 IIFNTVSQLNKFKDKAQKLHKKIGLRINPSVSYSKFILADPNRPFSRLGEKCKDKIESEI 155
+ + +L +FK + K + + S +++F + D + F L E+ + +
Sbjct: 66 ALLDDSKELQRFKAVSAKSKEDL-----VSQGFTEFTIEDFHNTFMDLIEQVEKQT---- 116
Query: 156 KNVNGLMFHNNCENKSFLCF-------SAMLKNIEKEFGHFITQIEWISLGGGIHFTDKD 208
+V L+ N ++ S S L+ K F HFI
Sbjct: 117 -SVADLLASFNDQSTSDYLVVYLRLLTSGYLQRESKFFEHFIEG---------------G 160
Query: 209 YPVKDFCQRLKEFSEKYSVQIYLEPGEAIVTNTTTLNTTVLDISENIKNLVIVDSSVEAH 268
VK+FCQ+ E K S I++ + +++ V + E
Sbjct: 161 RTVKEFCQQEVEPMCKESDHIHI----IALAQALSVSIQVEYMDRGEGGTTNPHIFPEGS 216
Query: 269 VPD-YLLYQ 276
P YLLY+
Sbjct: 217 EPKVYLLYR 225
>1pc6_A Protein NINB; structural genomics, PSI, protein structure
initiative, midwest center for structural genomics,
MCSG; 2.51A {Enterobacteria phage lambda} SCOP:
d.262.1.1
Length = 146
Score = 27.5 bits (61), Expect = 5.3
Identities = 6/34 (17%), Positives = 14/34 (41%)
Query: 184 KEFGHFITQIEWISLGGGIHFTDKDYPVKDFCQR 217
EF + I+ G+ ++D+ ++ R
Sbjct: 107 GEFAELLELIQAFGTERGVKWSDEARLALEWKAR 140
>1p3h_A 10 kDa chaperonin; beta barrel, acidic cluster, flexible loop,
structural genomics, PSI, protein structure initiative;
2.80A {Mycobacterium tuberculosis} SCOP: b.35.1.1 PDB:
1hx5_A 1lep_A 1p82_A 1p83_A
Length = 99
Score = 26.7 bits (59), Expect = 9.1
Identities = 13/55 (23%), Positives = 17/55 (30%), Gaps = 3/55 (5%)
Query: 277 ESATIYPNTG---PYTAMVCGRSCLAGDIFGEFHFEKPVKIGDRISFEDVAGYNI 328
S + P+T P V D GE V GD + + G I
Sbjct: 24 ASGLVIPDTAKEKPQEGTVVAVGPGRWDEDGEKRIPLDVAEGDTVIYSKYGGTEI 78
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.320 0.137 0.409
Gapped
Lambda K H
0.267 0.0467 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 3,226,453
Number of extensions: 148905
Number of successful extensions: 491
Number of sequences better than 10.0: 1
Number of HSP's gapped: 462
Number of HSP's successfully gapped: 41
Length of query: 367
Length of database: 5,693,230
Length adjustment: 94
Effective length of query: 273
Effective length of database: 3,414,294
Effective search space: 932102262
Effective search space used: 932102262
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 (26.4 bits)