RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 037610
(405 letters)
>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 = 408 bits (1051), Expect = e-142
Identities = 123/384 (32%), Positives = 187/384 (48%), Gaps = 33/384 (8%)
Query: 34 LTEFMQSTILKRQEFDEVPFYLMDLGVVVSLYNHMISNLPMIHPHYAVKCNPEPALLEAL 93
+ + + ILK FY+ +V L + P + PHYAVKCN + LL+ +
Sbjct: 1 MNSVVNN-ILKAHPHQTKSFYVSSPKIVEDLIDQWTILFPRVTPHYAVKCNNDEVLLKTM 59
Query: 94 AALGSNFDCGSRSEIEAVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELD 153
NFDC S SEI+ V+ + VSP RII+A+ K + + +A GV++ T DS ELD
Sbjct: 60 CDKNVNFDCASSSEIKKVIQIGVSPSRIIFAHTMKTIDDLIFAKDQGVDIATFDSSFELD 119
Query: 154 KIRNWHPKSDLLIRIKSPDDSGAKYPLDSKYGAGHHPQEIMPLLKAAEASGLSVVGVSFH 213
KI +HP +++RI+ DD A L +K+GA + EI LL+ A+ + V+G+SFH
Sbjct: 120 KIHTYHPNCKMILRIR-CDDPNATVQLGNKFGA--NEDEIRHLLEYAKQLDIEVIGISFH 176
Query: 214 VGSEATNFAAFRGAIAAAKAVFDTAAR------------------TSNNKMRKLFKLI-- 253
VGS + N A+ AI ++K F+ A + I
Sbjct: 177 VGSGSRNPEAYYRAIKSSKEAFNEAISVGHKPYILDIGGGLHADIDEGELSTYMSDYIND 236
Query: 254 -FRELLPGSSLKVISEPGRFFAASAFTLYAQIIGKRVRGELREYWINDGKFGSLAWVTCD 312
++ P ++ +++EPGRFFA L Q+IGKRVR L EY+ N+ +G + V +
Sbjct: 237 AIKDFFPEDTVTIVAEPGRFFAEHYSVLATQVIGKRVRDGLYEYFFNESTYGGFSNVIFE 296
Query: 313 EAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEVNDWLVFSEM 372
+++ L S ++G TCD D + LPEL + DW+ F
Sbjct: 297 KSVPTPQLL------RDVPDDEEYVPSVLYGCTCDGVDVINHNVALPELHIGDWVYFPSW 350
Query: 373 GAYTTACGTNFNGYSTVAIPTYVV 396
GAYT T+FNG+ + Y +
Sbjct: 351 GAYTNVLTTSFNGFGEYDV--YYI 372
>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 = 395 bits (1016), Expect = e-135
Identities = 126/407 (30%), Positives = 195/407 (47%), Gaps = 49/407 (12%)
Query: 34 LTEFMQSTILKRQEFDEVPFYLMDLGVVVSLYNHMISNLPMIHPHYAVKCNPEPALLEAL 93
L + + + + + F++ DLG +V ++ + + I P Y VKCN PA+LE L
Sbjct: 21 LGNVIDNYVYEHTLTGKNAFFVGDLGKIVKKHSQWQTVVAQIKPFYTVKCNSTPAVLEIL 80
Query: 94 AALGSNFDCGSRSEIEAVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELD 153
AALG+ F C S++E+ V L VSP+ II+ +PCK VS IKYAA VGVN+ T D+ EL
Sbjct: 81 AALGTGFACSSKNEMALVQELGVSPENIIFTSPCKQVSQIKYAAKVGVNIMTCDNEIELK 140
Query: 154 KIRNWHPKSDLLIRIKSPDDSGAKYPLDSKYGAGHHPQEIMPLLKAAEASGLSVVGVSFH 213
KI HP + +L+ I +D+ + K+G + LL+ A+ + ++GV FH
Sbjct: 141 KIARNHPNAKVLLHIA-TEDNIGGEDGNMKFGT--TLKNCRHLLECAKELDVQIIGVKFH 197
Query: 214 VGSEATNFAAFRGAIAAAKAVFDTAAR----------------------TSNNKMRKLFK 251
V S + + A++ A+ VFD A N+ + L
Sbjct: 198 VSSACKEYQVYVHALSDARCVFDMAGEFGFTMNMLDIGGGFTGTEIQLEEVNHVISPLLD 257
Query: 252 LIFRELLPGSSLKVISEPGRFFAASAFTLYAQIIGKRVRGELRE---------------Y 296
+ F E GS +++ISEPG ++ +SAFTL II K+V + Y
Sbjct: 258 IYFPE---GSGIQIISEPGSYYVSSAFTLAVNIIAKKVVENDKFSSGVEKNGSDEPAFVY 314
Query: 297 WINDGKFGSLAWVTCDEAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGH 356
++NDG +GS A + P + S+++GP+CD D++
Sbjct: 315 YMNDGVYGSFASKLSE--DLNTIPEVHKKYKEDEP----LFTSSLWGPSCDELDQIVESC 368
Query: 357 KLPELEVNDWLVFSEMGAYTTACGTNFNGYSTVAIPTYVVRSNQTLL 403
LPEL V DWL+F MGA + + FN + AI + S+ +
Sbjct: 369 LLPELNVGDWLIFDNMGADSFHEPSAFNDFQRPAIYFMMSFSDWYEM 415
>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 = 389 bits (1002), Expect = e-134
Identities = 140/385 (36%), Positives = 210/385 (54%), Gaps = 46/385 (11%)
Query: 52 PFYLMDLGVVVSLYNHMISNLPMIHPHYAVKCNPEPALLEALAALGSNFDCGSRSEIEAV 111
PF++ DLG +V + LP + P YAVKCN + +L LAALG+ FDC S +EI+ V
Sbjct: 39 PFFVADLGDIVRKHETWKKCLPRVTPFYAVKCNDDWRVLGTLAALGTGFDCASNTEIQRV 98
Query: 112 LLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKIRNWHPKSDLLIRIKSP 171
+ V P++IIYANPCK +SHI+YA GV++ T D V+EL+K+ HPK+ +++RI
Sbjct: 99 RGIGVPPEKIIYANPCKQISHIRYARDSGVDVMTFDCVDELEKVAKTHPKAKMVLRIS-T 157
Query: 172 DDSGAKYPLDSKYGAGHHPQEIMPLLKAAEASGLSVVGVSFHVGSEATNFAAFRGAIAAA 231
DDS A+ L K+GA ++ +L+ A+ + V GVSFHVGS +T+ + F AI+ +
Sbjct: 158 DDSLARCRLSVKFGA--KVEDCRFILEQAKKLNIDVTGVSFHVGSGSTDASTFAQAISDS 215
Query: 232 KAVFDTAAR------------------TSNNKMRKLFKLIFREL----LPGSSLKVISEP 269
+ VFD + K ++ +I L P L +++EP
Sbjct: 216 RFVFDMGTELGFNMHILDIGGGFPGTRDAPLKFEEIAGVINNALEKHFPPDLKLTIVAEP 275
Query: 270 GRFFAASAFTLYAQIIGKRVRGELRE--------------YWINDGKFGSLAWVTCDEAI 315
GR++ ASAFTL +I K+V ++ Y++NDG +GS + D A+
Sbjct: 276 GRYYVASAFTLAVNVIAKKVTPGVQTDVGAHAESNAQSFMYYVNDGVYGSFNCILYDHAV 335
Query: 316 AKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEVNDWLVFSEMGAY 375
PLP K Y S+V+GPTCD D++ + LPE++V +WL+F +MGAY
Sbjct: 336 V--RPLPQREPIPNEK----LYPSSVWGPTCDGLDQIVERYYLPEMQVGEWLLFEDMGAY 389
Query: 376 TTACGTNFNGYSTVAIPTYVVRSNQ 400
T ++FNG+ + I YVV
Sbjct: 390 TVVGTSSFNGFQSPTI-YYVVSGLP 413
>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 = 389 bits (1001), Expect = e-134
Identities = 141/386 (36%), Positives = 201/386 (52%), Gaps = 45/386 (11%)
Query: 49 DEVPFYLMDLGVVVSLYNHMISNLPMIHPHYAVKCNPEPALLEALAALGSNFDCGSRSEI 108
D+ FY+ DLG ++ + + LP + P YAVKCN A++ LAA+G+ FDC S++EI
Sbjct: 36 DKDAFYVADLGDILKKHLRWLKALPRVTPFYAVKCNDSRAIVSTLAAIGTGFDCASKTEI 95
Query: 109 EAVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKIRNWHPKSDLLIRI 168
+ V L V +R+IYANPCK VS IKYAAS GV + T DS EL K+ HPK+ L++RI
Sbjct: 96 QLVQGLGVPAERVIYANPCKQVSQIKYAASNGVQMMTFDSEIELMKVARAHPKAKLVLRI 155
Query: 169 KSPDDSGAKYPLDSKYGAGHHPQEIMPLLKAAEASGLSVVGVSFHVGSEATNFAAFRGAI 228
DDS A L K+GA + LL+ A+ + V+GVSFHVGS T+ F A+
Sbjct: 156 A-TDDSKAVCRLSVKFGA--TLKTSRLLLERAKELNIDVIGVSFHVGSGCTDPDTFVQAV 212
Query: 229 AAAKAVFDTAART------------------SNNKMRKLFKLIFREL----LPGSSLKVI 266
+ A+ VFD A + K ++ +I L S +++I
Sbjct: 213 SDARCVFDMATEVGFSMHLLDIGGGFPGSEDTKLKFEEITSVINPALDKYFPSDSGVRII 272
Query: 267 SEPGRFFAASAFTLYAQIIGKRVRGELRE--------------YWINDGKFGSLAWVTCD 312
+EPGR++ ASAFTL II K+ + + Y++NDG +GS + D
Sbjct: 273 AEPGRYYVASAFTLAVNIIAKKTVWKEQPGSDDEDESNEQTFMYYVNDGVYGSFNCILYD 332
Query: 313 EAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEVNDWLVFSEM 372
A K K + Y+S+++GPTCD D + LPE+ V DW++F M
Sbjct: 333 HAHVKALLQK------RPKPDEKYYSSSIWGPTCDGLDRIVERCNLPEMHVGDWMLFENM 386
Query: 373 GAYTTACGTNFNGYSTVAIPTYVVRS 398
GAYT A + FNG+ I + R
Sbjct: 387 GAYTVAAASTFNGFQRPNIYYVMSRP 412
>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 = 388 bits (999), Expect = e-133
Identities = 100/367 (27%), Positives = 170/367 (46%), Gaps = 34/367 (9%)
Query: 46 QEFDEVPFYLMDLGVVVSLYNHMISNLPMIHPHYAVKCNPEPALLEALAALGSNFDCGSR 105
++F P L+D V+ Y + + LP + HYA+K P P ++ L A G++FD +
Sbjct: 51 EQFGA-PLLLLDCDVIRQQYRALKNALPNVTLHYALKPLPHPVVVRTLLAEGASFDLATT 109
Query: 106 SEIEAVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKIRNWHPKSDLL 165
E+E V V D I+ +P K + I+ A + G N+ VD++ EL+K + + +LL
Sbjct: 110 GEVELVASEGVPADLTIHTHPIKRDADIRDALAYGCNVFVVDNLNELEKFKAYRDDVELL 169
Query: 166 IRIKSPDDSGAKYPLDSKYGAGHHPQEIMPLLKAAEASGLSVVGVSFHVGSEATNFAAFR 225
+R+ S +S A L K+G P++ + +++ A+ + + G+SFHVGS+ TN +
Sbjct: 170 VRL-SFRNSEAFADLSKKFGC--SPEQALVIIETAKEWNIRIKGLSFHVGSQTTNPNKYV 226
Query: 226 GAIAAAKAVFDTAARTSNNKMRKL----------------FKLIFRELLP-----GSSLK 264
AI + V + + L + ++
Sbjct: 227 EAIHTCRHVMEQVVERGLPALSTLDIGGGFPVNYTQQVMPIDQFCAPINEALSLLPETVH 286
Query: 265 VISEPGRFFAASAFTLYAQIIGKRVRGELREYWINDGKFGSLAWVTCDEAIAKCTPLPFA 324
V++EPGRF A A T A ++G+ R Y+++DG +GS + + D+A T +
Sbjct: 287 VLAEPGRFICAPAVTSVASVMGQAEREGQIWYYLDDGIYGSFSGLMFDDARYPLTTIKQG 346
Query: 325 SSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEVNDWLVFSEMGAYTTACGTNFN 384
S + GPTCD+ D + LP+L D ++ MGAYT+A T+FN
Sbjct: 347 G---------ELIPSVLSGPTCDSVDVIAENILLPKLNNGDLVIGRTMGAYTSATATDFN 397
Query: 385 GYSTVAI 391
+
Sbjct: 398 FFKRAQT 404
>2oo0_A ODC, ornithine decarboxylase; beta-alpha barrel, sheet, lyase; HET:
PLP; 1.90A {Homo sapiens}
Length = 471
Score = 388 bits (998), Expect = e-132
Identities = 146/388 (37%), Positives = 202/388 (52%), Gaps = 46/388 (11%)
Query: 49 DEVPFYLMDLGVVVSLYNHMISNLPMIHPHYAVKCNPEPALLEALAALGSNFDCGSRSEI 108
D+ FY+ DLG ++ + + LP + P YAVKCN A+++ LAA G+ FDC S++EI
Sbjct: 46 DKDAFYVADLGDILKKHLRWLKALPRVTPFYAVKCNDSKAIVKTLAATGTGFDCASKTEI 105
Query: 109 EAVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKIRNWHPKSDLLIRI 168
+ V L V P+RIIYANPCK VS IKYAA+ GV + T DS EL K+ HPK+ L++RI
Sbjct: 106 QLVQSLGVPPERIIYANPCKQVSQIKYAANNGVQMMTFDSEVELMKVARAHPKAKLVLRI 165
Query: 169 KSPDDSGAKYPLDSKYGAGHHPQEIMPLLKAAEASGLSVVGVSFHVGSEATNFAAFRGAI 228
DDS A L K+GA + LL+ A+ + VVGVSFHVGS T+ F AI
Sbjct: 166 A-TDDSKAVCRLSVKFGA--TLRTSRLLLERAKELNIDVVGVSFHVGSGCTDPETFVQAI 222
Query: 229 AAAKAVFDTAART------------------SNNKMRKLFKLIFREL----LPGSSLKVI 266
+ A+ VFD A K ++ +I L S +++I
Sbjct: 223 SDARCVFDMGAEVGFSMYLLDIGGGFPGSEDVKLKFEEITGVINPALDKYFPSDSGVRII 282
Query: 267 SEPGRFFAASAFTLYAQIIGKRV--------------RGELREYWINDGKFGSLAWVTCD 312
+EPGR++ ASAFTL II K++ + Y++NDG +GS + D
Sbjct: 283 AEPGRYYVASAFTLAVNIIAKKIVLKEQTGSDDEDESSEQTFMYYVNDGVYGSFNCILYD 342
Query: 313 EAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEVNDWLVFSEM 372
A PL K Y+S+++GPTCD D + LPE+ V DW++F M
Sbjct: 343 HAHV--KPLLQKRPKPDEK----YYSSSIWGPTCDGLDRIVERCDLPEMHVGDWMLFENM 396
Query: 373 GAYTTACGTNFNGYSTVAIPTYVVRSNQ 400
GAYT A + FNG+ I YV+
Sbjct: 397 GAYTVAAASTFNGFQRPTIY-YVMSGPA 423
>3mt1_A Putative carboxynorspermidine decarboxylase prote; PSI2, MCSG,
structural genomics; 2.50A {Sinorhizobium meliloti}
Length = 365
Score = 113 bits (286), Expect = 2e-28
Identities = 54/379 (14%), Positives = 105/379 (27%), Gaps = 56/379 (14%)
Query: 52 PFYLMDLGVVVSLYNHMISNLPMIHP--HYAVKCNPEPALLEALAALGSNFDCGSRSEIE 109
P+YL+D + + A+KC ++ + + S E+
Sbjct: 5 PYYLIDKAKLTRNMERIAHVREKSGAKALLALKCFATWSVFDLMRDYMDGTTSSSLFEVR 64
Query: 110 AVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKIRNWHPKSDLLIRIK 169
+ I S + +S+ +L++ + +R+
Sbjct: 65 LGRERFGKETHAYSVAYGD--NEIDEVVSHADKI-IFNSISQLERFADKAAGIARGLRLN 121
Query: 170 SPDDSGAKYPL------DSKYGAGHHPQEIMPLLKAAEASGLSVVGVSFHVGSEATNFAA 223
P S + + L S+ G + E + G H E +F
Sbjct: 122 -PQVSSSSFDLADPARPFSRLG--------EWDVPKVERVMDRINGFMIHNNCENKDFGL 172
Query: 224 FRGAIAAAKAVFDTAAR-------------TSNNKMRKLFKLIFRELLPGSSLKVISEPG 270
F + + F T ++ F R +++ EPG
Sbjct: 173 FDRMLGEIEERFGALIARVDWVSLGGGIHFTGDDYPVDAFSARLRAFSDRYGVQIYLEPG 232
Query: 271 RFFAASAFTLYAQIIG-KRVRGELREYWINDGKFGSLAWVTCDEAIAKCTPLPF---ASS 326
+ TL ++ N D +I ++
Sbjct: 233 EASITKSTTLEVTVLDTLY----------NGKNL-----AIVDSSIEAHMLDLLIYRETA 277
Query: 327 FTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEVNDWLVFSEMGAYTTACGTNFNGY 386
+ +Y + G +C A D EL+V D + F + YT FNG
Sbjct: 278 KVLPNEGSHSY--MICGKSCLAGDVFGEFRFAEELKVGDRISFQDAAGYTMVKKNWFNGV 335
Query: 387 STVAIPTYVVRSNQTLLAI 405
AI + + ++ +
Sbjct: 336 KMPAI--AIRELDGSVRTV 352
>2j66_A BTRK, decarboxylase; butirosin, AHBA biosynthesis, lyase; HET: PLP;
1.65A {Bacillus circulans}
Length = 428
Score = 111 bits (280), Expect = 2e-27
Identities = 68/383 (17%), Positives = 120/383 (31%), Gaps = 63/383 (16%)
Query: 52 PFYLMDLGVVVSLYNHMISNL-PMIHPHYAVKCNPEPALLEALAALGSNFDCGSRSEIEA 110
PFYL D + + Y + S P I + ++K N L + G + S E+
Sbjct: 18 PFYLYDGDFIEAHYRQLRSRTNPAIQFYLSLKANNNIHLAKLFRQWGLGVEVASAGELAL 77
Query: 111 VLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKI----RNWHPKSDLLI 166
S + II++ P K S ++ A G+ +SVEEL I + + + I
Sbjct: 78 ARHAGFSAENIIFSGPGKKRSELEIAVQSGIYCIIAESVEELFYIEELAEKENKTARVAI 137
Query: 167 RIKSPD-DSGAKY----PLDSKYGAGHHPQEIMPLLK-AAEASGLSVVGVSFHVGSEATN 220
RI +PD G+ + ++G + ++ +G+ + G++ N
Sbjct: 138 RI-NPDKSFGSTAIKMGGVPRQFGMDE--SMLDAVMDAVRSLQFTKFIGIHVYTGTQNLN 194
Query: 221 FAAFRGAIAAAKAVFDTAARTSN--------------------------------NKMRK 248
+ + K D +
Sbjct: 195 TDSII---ESMKYTVDLGRNIYERYGIVCECINLGGGFGVPYFSHEKALDIGKITRTVSD 251
Query: 249 LFKLIFRELLPGSSLKVISEPGRFFAASAFTLYAQIIG-KRVRGELREYWINDGKFGSLA 307
+ P I E GR+ A A +++ K +G + I DG A
Sbjct: 252 YVQEARDTRFPQ--TTFIIESGRYLLAQAAVYVTEVLYRKASKG--EVFVIVDGGMHHHA 307
Query: 308 ----WVTCDEAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEV 363
+ +P + + T+ GP C D + +P L
Sbjct: 308 ASTFRGRSMRSNYPMEYIPVRED--SGRRELEKV--TIAGPLCTPEDCLGKDVHVPALYP 363
Query: 364 NDWLVFSEMGAYT-TACGTNFNG 385
D + GAY + +F G
Sbjct: 364 GDLVCVLNSGAYGLSFSPVHFLG 386
>3n29_A Carboxynorspermidine decarboxylase; lyase; HET: PLP; 1.90A
{Campylobacter jejuni subsp}
Length = 418
Score = 110 bits (278), Expect = 4e-27
Identities = 53/383 (13%), Positives = 109/383 (28%), Gaps = 50/383 (13%)
Query: 52 PFYLMDLGVVVSLYNHMISNLPMIHP--HYAVKCNPEPALLEALAALGSNFDCGSRSEIE 109
P Y+++ + + S A+K ++ + C E +
Sbjct: 45 PAYILEEDKLRKNCELLASVGEKSGAKVLLALKGFAFSGAMKIVGEYLKGCTCSGLWEAK 104
Query: 110 AVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKIRNWHPKSDLLIRIK 169
+ + Y+ K I AS+ ++ +S+ + K ++ K+ L +R
Sbjct: 105 -FAKEYMDKEIHTYSPAFKE-DEIGEIASLSHHI-VFNSLAQFHKFQSKTQKNSLGLRCN 161
Query: 170 SPDDSGAKYPLDSKYGAGHHPQEIMPLLK----------AAEASGLSVVGVSFHVGSEAT 219
+ + P + ++ G+ FH E
Sbjct: 162 -VE-----------FSLAPKEL-YNPCGRYSRLGIRAKDFENVDLNAIEGLHFHALCE-E 207
Query: 220 NFAAFRGAIAAAKAVFDTAA--------------RTSNNKMRKLFKLIFRELLPGSSLKV 265
+ A + + F + KL L + ++V
Sbjct: 208 SADALEAVLKVFEEKFGKWIGQMKWVNFGGGHHITKKGYDVEKLIALC-KNFSDKYGVQV 266
Query: 266 ISEPGRFFAASAFTLYAQIIGKRVRGELREYWINDGKFGSLAWVTCDEA---IAKCTPLP 322
EPG L A ++ + E + ++ + + L
Sbjct: 267 YLEPGEAVGWQTGNLVASVVD-IIENEKQIAILDTSSEAHMPDTIIMPYTSEVLNARILA 325
Query: 323 FASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEVNDWLVFSEMGAYTTACGTN 382
+ S + + G TC A D + +L++ D +VF + YT T
Sbjct: 326 TRENEKISDLKENEFAYLLTGNTCLAGDVMGEYAFDKKLKIGDKIVFLDQIHYTIVKNTT 385
Query: 383 FNGYSTVAIPTYVVRSNQTLLAI 405
FNG + ++ L I
Sbjct: 386 FNGIRLPNL--MLLDHKNELQMI 406
>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 = 108 bits (273), Expect = 2e-26
Identities = 69/384 (17%), Positives = 120/384 (31%), Gaps = 92/384 (23%)
Query: 52 PFYLMDLGVVVSLYNHMISNLPMIHPHYAVKCNPEPALLEALAALGSNFDCGSRSEIEAV 111
P ++ D ++ + ++ +A K +L + G D S EIE
Sbjct: 27 PVWVYDAQIIRRQIAAL-KQFDVVR--FAQKACSNIHILRLMREQGVKVDSVSLGEIERA 83
Query: 112 LLLDVSP----DRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKIRNWHPKSDLLIR 167
L +P D I++ + ++ + + + + SV+ LD++ P + +R
Sbjct: 84 LAAGYNPQTHPDDIVFTADVIDQATLERVSELQIPV-NAGSVDMLDQLGQVSPGHRVWLR 142
Query: 168 IKSPDDSGAKYPLDSKYGAGHHP---------------QEIMPLLKAAEASGLSVVGVSF 212
+ +P +G GH ++ L + L +VG+
Sbjct: 143 V-NPG-----------FGHGHSQKTNTGGENSKHGIWYTDLPAALDVIQRHHLQLVGIHM 190
Query: 213 HVGSEATNFAAFRGAIAAAKAVFDTAARTSN---------------------------NK 245
H+GS + V +
Sbjct: 191 HIGSGVDYAHLEQ---VCGAMVRQVIEFGQDLQAISAGGGLSVPYQQGEEAVDTEHYYGL 247
Query: 246 MRKLFKLIFRELLPGSSLKVISEPGRFFAASAFTLYAQIIGKRVRGELREYWINDGKFGS 305
+ I R L G +K+ EPGRF A + L Q+ + R + + D F
Sbjct: 248 WNAAREQIARHL--GHPVKLEIEPGRFLVAQSGVLITQVRS-VKQMGSRHFVLVDAGFND 304
Query: 306 L-------AWVTCDEAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTC---DAF----DE 351
L ++ A L A + T V GP C D F
Sbjct: 305 LMRPAMYGSYHHISALAADGRSLEHAPTVET----------VVAGPLCESGDVFTQQEGG 354
Query: 352 VFTGHKLPELEVNDWLVFSEMGAY 375
LPE++ D+LV + GAY
Sbjct: 355 NVETRALPEVKAGDYLVLHDTGAY 378
>2p3e_A Diaminopimelate decarboxylase; southeast collaboratory for struct
genomics, riken spring-8 center; 1.99A {Aquifex
aeolicus}
Length = 420
Score = 107 bits (269), Expect = 8e-26
Identities = 77/369 (20%), Positives = 130/369 (35%), Gaps = 71/369 (19%)
Query: 52 PFYLMDLGVVVSLYNHMISNLPMIHPHYAVKCNPEPALLEALAALGSNFDCGSRSEIEAV 111
P Y+ + + P YAVK N P L++ L LG+ D S E+
Sbjct: 35 PLYVYSSNFIKERFEAYRKAFPDALICYAVKANFNPHLVKLLGELGAGADIVSGGELYLA 94
Query: 112 LLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKI----RNWHPKSDLLIR 167
+ P+RI+YA K + A + + V+S +ELD + K+ + IR
Sbjct: 95 KKAGIPPERIVYAGVGKTEKELTDAVDSEILMFNVESRQELDVLNEIAGKLGKKARIAIR 154
Query: 168 IKSPD-DS--------GAKYPLDSKYGAGHHPQEIMPLLK-AAEASGLSVVGVSFHVGSE 217
+ +PD D G + SK+G +E + A++ L +VG+ H+GS+
Sbjct: 155 V-NPDVDPKTHPYIATGMQ---KSKFGVDI--REAQKEYEYASKLENLEIVGIHCHIGSQ 208
Query: 218 ATNFAAFRGAIAAAKAVFDTAAR---------------------TSNNKMRKLFKLI--F 254
+ + +R A + V +K L
Sbjct: 209 ILDISPYR---EAVEKVVSLYESLTQKGFDIKYLDIGGGLGIKYKPEDKEPAPQDLADLL 265
Query: 255 RELLPGSSLKVISEPGRFFAASAFTLYAQIIG-KRVRGELREYWINDGKFGSL------- 306
++LL K+I EPGR +A L Q+ K + + I D L
Sbjct: 266 KDLLENVKAKIILEPGRSIMGNAGILITQVQFLK--DKGSKHFIIVDAGMNDLIRPSIYN 323
Query: 307 AWVTCDEAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEVNDW 366
A+ I + + GP C+ D + ++ E++ ++
Sbjct: 324 AY----HHIIPVET---------KERKKVVA--DIVGPICETGDFLALDREIEEVQRGEY 368
Query: 367 LVFSEMGAY 375
L GAY
Sbjct: 369 LAVLSAGAY 377
>2qgh_A Diaminopimelate decarboxylase; lyase; HET: PLP LYS; 2.30A
{Helicobacter pylori} PDB: 3c5q_A*
Length = 425
Score = 104 bits (263), Expect = 5e-25
Identities = 86/367 (23%), Positives = 137/367 (37%), Gaps = 65/367 (17%)
Query: 52 PFYLMDLGVVVSLYNHMISNLPMI--HPHYAVKCNPEPALLEALAALGSNFDCGSRSEIE 109
PFYL D + + + YA+K N ++L LA L S DC S EI+
Sbjct: 34 PFYLYDFDKIKQAFLNYKEAFKGRKSLICYALKANSNLSILSLLAHLESGADCVSIGEIQ 93
Query: 110 AVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKI----RNWHPKSDLL 165
L + P RI+++ K I+ A + + V+S EL I ++ K+ +
Sbjct: 94 RALKAGIKPYRIVFSGVGKSAFEIEQALKLNILFLNVESFMELKTIETIAQSLGIKARIS 153
Query: 166 IRIKSPD-DS--------GAKYPLDSKYGAGHHPQEIMPLLKAAEAS-GLSVVGVSFHVG 215
IRI P+ D+ G K ++K+G G +E + + A+ S L V V FH+G
Sbjct: 154 IRIN-PNIDAKTHPYISTGLK---ENKFGVGE--KEALEMFLWAKKSAFLEPVSVHFHIG 207
Query: 216 SEATNFAAFRGAIAAAKAVFDTAARTSNNKMRKL--------------------FKLIFR 255
S+ + A + + +R +
Sbjct: 208 SQLLDLEPIIEASQKVAKIAK-SLIALGIDLRFFDVGGGIGVSYENEETIKLYDYAQGIL 266
Query: 256 ELLPGSSLKVISEPGRFFAASAFTLYAQIIGKRVRGELREYWINDGKFGSL-------AW 308
L G L +I EPGR A + L Q++ ++ + + + + I D A
Sbjct: 267 NALQGLDLTIICEPGRSIVAESGELITQVLYEK-KAQNKRFVIVDAGMNDFLRPSLYHAK 325
Query: 309 VTCDEAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEVNDWLV 368
AI TP + V GP C++ D LPELE D +
Sbjct: 326 ----HAIRVITP--------SKGREISPC--DVVGPVCESSDTFLKDAHLPELEPGDKIA 371
Query: 369 FSEMGAY 375
++GAY
Sbjct: 372 IEKVGAY 378
>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 = 103 bits (259), Expect = 2e-24
Identities = 70/379 (18%), Positives = 120/379 (31%), Gaps = 86/379 (22%)
Query: 52 PFYLMDLGVVVSLYNHMISNLPMI--HPHYAVKCNPEPALLEALAALGSNFDCGSRSEIE 109
PFY+ + + + YA+K N A+L ALA LG+ D S+ EI
Sbjct: 50 PFYVYSRATIERHFRVFHDAFADMDTLVTYALKANSNQAVLTALAKLGAGADTVSQGEIR 109
Query: 110 AVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKI----RNWHPKSDLL 165
L + +RI+++ K + +A G+ V+S EL+ + + +
Sbjct: 110 RALAAGIPANRIVFSGVGKTPREMDFALEAGIYCFNVESEPELEILSARAVAAGKVAPVS 169
Query: 166 IRIKSPDDSGAKYPLDSKYGAGHHP---------------QEIMPLLK-AAEASGLSVVG 209
+RI PD A H + AA GL+VVG
Sbjct: 170 LRIN-PD-----------VDAKTHAKISTGKSENKFGIPRDKARAAYARAASLPGLNVVG 217
Query: 210 VSFHVGSEATNFAAFRGAIAAAKAVFDTAARTSNNKMR---------------------- 247
+ H+GS+ + F A + + +
Sbjct: 218 IDMHIGSQIIDLEPFD---NAFALMAELVKELQADGHNIRHVDVGGGLGIPYRTPNTPPP 274
Query: 248 ---KLFKLIFRELLPGSSLKVISEPGRFFAASAFTLYAQIIG-KRVRGELREYWINDGKF 303
+++ + + LK + EPGR +A L ++I K G+ + + I D
Sbjct: 275 PPVAYAQIV-AKHIKPLGLKTVFEPGRLIVGNAGLLVTEVIFVK--EGDAKNFVIVDAAM 331
Query: 304 GSL-------AWVTCDEAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGH 356
L A+ I GP C+ D +
Sbjct: 332 NDLIRPTLYDAF----HDIRPVIM-------PNDNAPRIRA--DFVGPVCETGDYLGLDR 378
Query: 357 KLPELEVNDWLVFSEMGAY 375
++ + D + GAY
Sbjct: 379 EVAKPAPGDLIAICTTGAY 397
>2yxx_A Diaminopimelate decarboxylase; TM1517, TIM beta/alpha barrel fold,
lyase, structural genomi NPPSFA; HET: PLP; 1.70A
{Thermotoga maritima}
Length = 386
Score = 101 bits (254), Expect = 6e-24
Identities = 70/361 (19%), Positives = 128/361 (35%), Gaps = 68/361 (18%)
Query: 52 PFYLMDLGVVVSLYNHMISNLPMI--HPHYAVKCNPEPALLEALAALGSNFDCGSRSEIE 109
P Y+ + + + P +AVK N P LL+ L G D ++ E+
Sbjct: 14 PTYVYFEETLRKRSRLVKEVFEGVNLLPTFAVKANNNPVLLKILREEGFGMDVVTKGELL 73
Query: 110 AVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKIRNWHPKS-DLLIRI 168
A L V +++ K +++ V + VDS EE++ R +P+ + IR+
Sbjct: 74 AAKLAGVPSHTVVWNGNGKSRDQMEHFLREDVRIVNVDSFEEMEIWRELNPEGVEYFIRV 133
Query: 169 KSPD-DS--------GAKYPLDSKYGAGHHPQEIMPLLKAAEASGLSVVGVSFHVGSEAT 219
+P+ D+ G K K+G ++ ++ +++ G+ H+GS+ T
Sbjct: 134 -NPEVDAKTHPHISTGLK---KHKFGIPLE--DLDSFMERFR--SMNIRGLHVHIGSQIT 185
Query: 220 NFAAFRGAIAAAKAVFDTAA-----------------RTSNNKMRKLFKLIFRELLPGSS 262
F A V + + + + +L
Sbjct: 186 RVEPFV---EAFSKVVRASERYGFEEINIGGGWGINYSGEELDLSSYREKVVPDL--KRF 240
Query: 263 LKVISEPGRFFAASAFTLYAQIIG-KRVRGELREYWINDGKFGSL-------AWVTCDEA 314
+VI E GR+ A + L +++ K R + + + DG L A+
Sbjct: 241 KRVIVEIGRYIVAPSGYLLLRVVLVK--RRHNKAFVVVDGGMNVLIRPALYSAYHRIFVL 298
Query: 315 IAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEVNDWLVFSEMGA 374
+G V GP C++ D + +LPE+E D + GA
Sbjct: 299 --------------GKQGKEMRA--DVVGPLCESGDVIAYDRELPEVEPGDIIAVENAGA 342
Query: 375 Y 375
Y
Sbjct: 343 Y 343
>3n2b_A Diaminopimelate decarboxylase; LYSA, lyase, structural genom center
for structural genomics of infectious diseases, CSGI;
1.80A {Vibrio cholerae}
Length = 441
Score = 101 bits (253), Expect = 1e-23
Identities = 83/371 (22%), Positives = 133/371 (35%), Gaps = 74/371 (19%)
Query: 52 PFYLMDLGVVVSLYNHMISNLPMI--HPHYAVKCNPEPALLEALAALGSNFDCGSRSEIE 109
P Y+ + ++ ++ YAVK N +L LA LGS FD S E+E
Sbjct: 53 PLYVYSRATLERHWHAFDKSVGDYPHLICYAVKANSNLGVLNTLARLGSGFDIVSVGELE 112
Query: 110 AVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKI----RNWHPKSDLL 165
VL P +++++ K + +K A + + V+S EL ++ K+ +
Sbjct: 113 RVLAAGGDPSKVVFSGVGKTEAEMKRALQLKIKCFNVESEPELQRLNKVAGELGVKAPIS 172
Query: 166 IRIKSPD-DS--------GAKYPLDSKYGAGHHPQEIMPLLK-AAEASGLSVVGVSFHVG 215
+RI PD D+ G + D+K+G + + A L V G+ H+G
Sbjct: 173 LRIN-PDVDAKTHPYISTGLR---DNKFGITF--DRAAQVYRLAHSLPNLDVHGIDCHIG 226
Query: 216 SEATNFAAFRGAIAAAKAVFDTAARTSNNKMR-----------------------KLFKL 252
S+ T A F A + + + K
Sbjct: 227 SQLTALAPFI---DATDRLLALIDSLKAEGIHIRHLDVGGGLGVVYRDELPPQPSEYAKA 283
Query: 253 IFRELLPGSSLKVISEPGRFFAASAFTLYAQIIG-KRVRGELREYWINDGKFGSL----- 306
+ L L++I EPGR AA+A L ++ K E + + I D L
Sbjct: 284 LLDRLERHRDLELIFEPGRAIAANAGVLVTKVEFLK--HTEHKNFAIIDAAMNDLIRPAL 341
Query: 307 --AWVTCDEAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVFTGHKLPELEVN 364
AW + I P +G +TY + GP C+ D + L+
Sbjct: 342 YQAW----QDIIPLRP---------RQGEAQTY--DLVGPVCETSD-FLGKDRDLVLQEG 385
Query: 365 DWLVFSEMGAY 375
D L GAY
Sbjct: 386 DLLAVRSSGAY 396
>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 = 94.1 bits (235), Expect = 2e-21
Identities = 76/382 (19%), Positives = 127/382 (33%), Gaps = 83/382 (21%)
Query: 52 PFYLMDLGVVVSLYNHMISNLPMIHP--------HYAVKCNPEPALLEALAALGSNFDCG 103
P Y+M + YN I YA K N A+ LA LG D
Sbjct: 31 PLYVMSEEQIKINYNRYIEAFKRWEEETGKEFIVAYAYKANANLAITRLLAKLGCGADVV 90
Query: 104 SRSEIEAVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKI----RNWH 159
S E+ L +V +I++ CK I + VDS+ EL I +
Sbjct: 91 SGGELYIAKLSNVPSKKIVFNGNCKTKEEIIMGIEANIRAFNVDSISELILINETAKELG 150
Query: 160 PKSDLLIRIKSPD-DS--------GAKYPLDSKYGAGHHPQEIMPLLK-AAEASGLSVVG 209
+++ RI +P+ + G K +K+G M +K A E ++VVG
Sbjct: 151 ETANVAFRI-NPNVNPKTHPKISTGLK---KNKFGLDVESGIAMKAIKMALEMEYVNVVG 206
Query: 210 VSFHVGSEATNFAAFRGAIAAAKAVFDTAAR---------------------TSNNK--- 245
V H+GS+ T+ + F + V D + +
Sbjct: 207 VHCHIGSQLTDISPFI---EETRKVMDFVVELKEEGIEIEDVNLGGGLGIPYYKDKQIPT 263
Query: 246 ----MRKLFKLIFRELLPGSSLKVISEPGRFFAASAFTLYAQIIG-KRVRGELREYWIND 300
+ + + +I EPGR A+A L ++ K + ++ + D
Sbjct: 264 QKDLADAIINTMLKYKDKVEMPNLILEPGRSLVATAGYLLGKVHHIK--ETPVTKWVMID 321
Query: 301 GKFGSL-------AWVTCDEAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAFDEVF 353
+ A+ I K ++ G C++ D
Sbjct: 322 AGMNDMMRPAMYEAY---HHIINC-----------KVKNEKEVV--SIAGGLCESSDVFG 365
Query: 354 TGHKLPELEVNDWLVFSEMGAY 375
+L ++EV D L ++GAY
Sbjct: 366 RDRELDKVEVGDVLAIFDVGAY 387
>3nzq_A ADC, biosynthetic arginine decarboxylase; alpha-beta protein,
structural genomics, PSI-biology, protei structure
initiative; 3.10A {Escherichia coli}
Length = 666
Score = 86.5 bits (214), Expect = 2e-18
Identities = 45/260 (17%), Positives = 88/260 (33%), Gaps = 51/260 (19%)
Query: 76 HPHYAVKCNPEPALLEALAALGSN--FDCGSRSEIEAVLLLDVSPDRIIYANPCKPVSHI 133
Y +K N ++E+L G + GS++E+ AVL +I N K +I
Sbjct: 121 FLVYPIKVNQHRRVIESLIHSGEPLGLEAGSKAELMAVLAHAGMTRSVIVCNGYKDREYI 180
Query: 134 KYAAS---VGVNLT-TVDSVEELDKI----RNWHPKSDLLIRIKSPDDSGAKYP----LD 181
+ A +G + ++ + E+ + + L +R + K+
Sbjct: 181 RLALIGEKMGHKVYLVIEKMSEIAIVLDEAERLNVVPRLGVRARLASQGSGKWQSSGGEK 240
Query: 182 SKYGAGHHPQEIMPLLKAAEASGL--SVVGVSFHVGSEATNFAAFRGAIAAAKAVFDTAA 239
SK+G +++ L++ +G S+ + FH+GS+ N + + +
Sbjct: 241 SKFGLAAT--QVLQLVETLREAGRLDSLQLLHFHLGSQMANIRDIATGVRESARFYVELH 298
Query: 240 R---------------------------TSNNKMRKLFKLIFREL------LPGSSLKVI 266
+ + N + + I + VI
Sbjct: 299 KLGVNIQCFDVGGGLGVDYEGTRSQSDCSVNYGLNEYANNIIWAIGDACEENGLPHPTVI 358
Query: 267 SEPGRFFAASAFTLYAQIIG 286
+E GR A L + IIG
Sbjct: 359 TESGRAVTAHHTVLVSNIIG 378
>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 = 83.4 bits (207), Expect = 1e-17
Identities = 67/387 (17%), Positives = 111/387 (28%), Gaps = 85/387 (21%)
Query: 52 PFYLMDLGVVVSLYNHMISNL-PMIHPHYAVKCNPEPALLEALAALGSNFDCGSRSEIEA 110
P +++D S + + HYA K + ++ G D + E+
Sbjct: 43 PLFVIDEDDFRSRCRETAAAFGSGANVHYAAKAFLCSEVARWISEEGLCLDVCTGGELAV 102
Query: 111 VLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEELDKI----RNWHPKSDLLI 166
L P+RI K VS + A GV VDS+ E++++ D+L+
Sbjct: 103 ALHASFPPERITLHGNNKSVSELTAAVKAGVGHIVVDSMTEIERLDAIAGEAGIVQDVLV 162
Query: 167 RIKSPD---------DSGAKYPLDSKYGAGHHPQEIMPLLK-AAEASGLSVVGVSFHVGS 216
R+ + + D K+G M ++ L +VG+ H+GS
Sbjct: 163 RLT-VGVEAHTHEFISTAHE---DQKFGLSVASGAAMAAVRRVFATDHLRLVGLHSHIGS 218
Query: 217 EATNFAAFRGAIAAAKAVFDTAARTSNNKMRKLFKLIFRELLPG---------------- 260
+ + F AA V + + G
Sbjct: 219 QIFDVDGFE---LAAHRVIGLLRDVVGEFGPEK-TAQIATVDLGGGLGISYLPSDDPPPI 274
Query: 261 --------------------SSLKVISEPGRFFAASA-FTLYAQIIGKRVR---GELREY 296
+ K++ EPGR A TLY K V R Y
Sbjct: 275 AELAAKLGTIVSDESTAVGLPTPKLVVEPGRAIAGPGTITLYEVGTVKDVDVSATAHRRY 334
Query: 297 WINDGKFGSL-------AWVTCDEAIAKCTPLPFASSFTTSKGLTRTYNSTVFGPTCDAF 349
DG A S + G C++
Sbjct: 335 VSVDGGMSDNIRTALYGAQYDVRLVSR------------VSDAPPVPA--RLVGKHCESG 380
Query: 350 DEVFTGHKLP-ELEVNDWLVFSEMGAY 375
D + +P ++ D + + GAY
Sbjct: 381 DIIVRDTWVPDDIRPGDLVAVAATGAY 407
>3nzp_A Arginine decarboxylase; alpha-beta protein, structural genomics,
PSI-biology, protei structure initiative; HET: PLP;
3.00A {Campylobacter jejuni subsp}
Length = 619
Score = 82.2 bits (203), Expect = 4e-17
Identities = 49/293 (16%), Positives = 97/293 (33%), Gaps = 55/293 (18%)
Query: 79 YAVKCNPEPALLEALAALGSN----FDCGSRSEIEAVLLLDVSPDRIIYANPCKPVSHIK 134
Y +K N P ++ L LG + + GS++E+ + + I N K I
Sbjct: 83 YPLKVNQYPGFVKNLVKLGKDYNYGLEAGSKAELLLAMAYNNEGAPITV-NGFKDRELIN 141
Query: 135 YAAS---VGVNLT-TVDSVEELDKI-----RNWHPKSDLLIRIKSPDDSGA-KYPLDSKY 184
+G N+T T++ + EL+ I + PK ++ +R++ +G +
Sbjct: 142 IGFIAAEMGHNITLTIEGLNELEAIIDIAKERFKPKPNIGLRVR-LHSAGVGIWAKSGGI 200
Query: 185 GA--GHHPQEIMPLLKAAEASGL--SVVGVSFHVGSEATNFAAFRGAIAAAKAVFDTAAR 240
+ G E++ + + + L + FH+GS+ T + A+ A ++ +
Sbjct: 201 NSKFGLTSTELIEAVNLLKENKLLEQFTMIHFHLGSQITEIHPLKKALNEAGNIYTELRK 260
Query: 241 TSNNKMR---------------------------------KLFKLIFRELLPGSSLKVIS 267
++ + K I + +
Sbjct: 261 MGAKNLKAINLGGGLAVEYSQFKNEKSRNYTLREYANDVVFILKNIAEQ-KKDLEPDIFI 319
Query: 268 EPGRFFAASAFTLYAQIIGKRVRGELREYWINDGKFGSLAWVTCDEAIAKCTP 320
E GRF AA+ L A ++ E E + K + P
Sbjct: 320 ESGRFVAANHAVLIAPVLELF-SQEYAENKLILKKQNPKLIDELYDLYKSIKP 371
>3n2o_A ADC, biosynthetic arginine decarboxylase; lyase; HET: PLP; 2.30A
{Vibrio vulnificus}
Length = 648
Score = 81.1 bits (200), Expect = 9e-17
Identities = 44/260 (16%), Positives = 88/260 (33%), Gaps = 52/260 (20%)
Query: 79 YAVKCNPEPALLEALAALGSN-------FDCGSRSEIEAVLLLDVSPDRIIYANPCKPVS 131
Y +K N + +++ + A + + GS+ E+ AVL + +I N K
Sbjct: 102 YPIKVNQQREVVDEILASQAQLETKQLGLEAGSKPELLAVLAMAQHASSVIVCNGYKDRE 161
Query: 132 HIKYAASV---GVNLTTV-DSVEELDKI----RNWHPKSDLLIRIKSPDDSGAKYPLDSK 183
+I+ A G + V + + ELD + ++ L IRI+ K+
Sbjct: 162 YIRLALIGEKLGHKVFIVLEKMSELDLVLREAKSLGVTPRLGIRIRLASQGAGKWQASGG 221
Query: 184 YGA--GHHPQEIMPLLKAAEASGL--SVVGVSFHVGSEATNFAAFRGAIAAAKAVFDTAA 239
+ G +++ ++ + ++ V FH+GS+ N R + + +
Sbjct: 222 EKSKFGLSASQVLNVISRLKKENQLDTLQLVHFHLGSQMANIRDVRNGVNESARFYCELR 281
Query: 240 R---------------------------TSNNKMRKLFKLIFREL------LPGSSLKVI 266
+ N + + + I + +I
Sbjct: 282 TLGANITYFDVGGGLAIDYDGTRSQSSNSMNYGLVEYARNIVNTVGDVCKDYKQPMPVII 341
Query: 267 SEPGRFFAASAFTLYAQIIG 286
SE GR A L + +IG
Sbjct: 342 SESGRSLTAHHAVLISNVIG 361
>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 = 60.4 bits (146), Expect = 6e-10
Identities = 62/316 (19%), Positives = 100/316 (31%), Gaps = 111/316 (35%)
Query: 9 PSTLLHLDAQVMGGQRVTTVVTKDELTEFMQSTILKR--QEFDEVPFYLM--DL-GVVVS 63
P+T L + +G V+++V ++ +F Q +L EF+ YL D+ +
Sbjct: 54 PTTPAELVGKFLG--YVSSLVEPSKVGQFDQ--VLNLCLTEFENC--YLEGNDIHALAAK 107
Query: 64 LYNHMISNLP----MIHPHYAVKC--------NPEPALLEA-------LAAL----GSN- 99
L + L +I + + AL A L A+ G+
Sbjct: 108 LLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTD 167
Query: 100 --FDCGSRSEIEAVLLLDVSPDRIIYANPCKPVSH--IKYAASVGVNLTTVDSVEE---- 151
F+ E+ R +Y + IK++A L E
Sbjct: 168 DYFE-----EL-----------RDLYQTY-HVLVGDLIKFSAETLSELIRTTLDAEKVFT 210
Query: 152 --LDKIRNW--HPKSDLLIRIKSPDDS------------G----AKYPLDSKYGAGHHPQ 191
L+ I W +P + +PD G A Y + +K G P
Sbjct: 211 QGLN-ILEWLENPSN-------TPDKDYLLSIPISCPLIGVIQLAHYVVTAKL-LGFTPG 261
Query: 192 EIMPLLKAAEASGLSVVGVSFHVGSEATNFAAFRGAIAAAK--AVFDTAARTSNNKMRKL 249
E+ LK A +V A AIA F + R + + L
Sbjct: 262 ELRSYLKGATGHSQGLV-------------TAV--AIAETDSWESFFVSVRKA---ITVL 303
Query: 250 FKLIFR--ELLPGSSL 263
F + R E P +SL
Sbjct: 304 FFIGVRCYEAYPNTSL 319
Score = 40.0 bits (93), Expect = 0.002
Identities = 27/164 (16%), Positives = 49/164 (29%), Gaps = 59/164 (35%)
Query: 224 FRGAIAAAKAVFDTAARTSNNKMRKLFKLIFRELLPGSSLKVISE-PGRFFAASAFTLYA 282
AA+ V++ A F++ S L ++ P F
Sbjct: 1635 LYKTSKAAQDVWNRADN------------HFKDTYGFSILDIVINNPVNL--TIHFG--- 1677
Query: 283 QIIGKRVRGELREYWINDGKFGSLAWVTCDEAIAKCTPLPFAS--------SFTTSKG-L 333
G++ + +RE + ++ + T + K + F +F + KG L
Sbjct: 1678 ---GEKGK-RIRE------NYSAMIFETIVDGKLKTEKI-FKEINEHSTSYTFRSEKGLL 1726
Query: 334 TRTYNS-----TV------------FGPTCDAFDEVFTGHKLPE 360
+ T + + P D F GH L E
Sbjct: 1727 SATQFTQPALTLMEKAAFEDLKSKGLIPA----DATFAGHSLGE 1766
Score = 35.0 bits (80), Expect = 0.049
Identities = 36/221 (16%), Positives = 63/221 (28%), Gaps = 92/221 (41%)
Query: 7 GTPSTLLHLDAQVMGGQRVTTVVTKDELTEFMQSTIL--KRQ-----EFDEV--PFYLMD 57
G P +L L+ + ++ D QS I +R+ F V PF
Sbjct: 381 GPPQSLYGLNLTL---RKAKAPSGLD------QSRIPFSERKLKFSNRFLPVASPF---- 427
Query: 58 LGVVVSLYNHMISNLPMIHPHYAVKCNPEPALLEALAALGSNFDCGSRSEIEAVLLLDVS 117
H H L+ A ++ D+
Sbjct: 428 ------------------HSHL---------LVPA----------------SDLINKDLV 444
Query: 118 PDRIIY-ANPCK-PVSHIKYAASVGVNLTTVDS--VEEL-DKIR----NWHPKSDLLIRI 168
+ + + A + PV Y G +L + E + D I W +
Sbjct: 445 KNNVSFNAKDIQIPV----YDTFDGSDLRVLSGSISERIVDCIIRLPVKW-ETT------ 493
Query: 169 KSPDDSGAKYPLDSKYGAGHHPQEIMPLL-KAAEASGLSVV 208
A + LD +G G + L + + +G+ V+
Sbjct: 494 ---TQFKATHILD--FGPGGASG-LGVLTHRNKDGTGVRVI 528
>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 = 48.7 bits (115), Expect = 3e-06
Identities = 50/296 (16%), Positives = 82/296 (27%), Gaps = 107/296 (36%)
Query: 20 MGGQRVTTVVTKDELT-EFMQSTILKRQEFDEVPFYLMDLGVVVSLYNHMISNLPMIHPH 78
+ G K + + S ++ + ++ F+L +L
Sbjct: 158 VLG------SGKTWVALDVCLSYKVQCKMDFKI-FWL-NLK------------------- 190
Query: 79 YAVKCNPEPALLEALAALGSNFDCGSRSEIE---------------------------AV 111
CN +LE L L D S + +
Sbjct: 191 ---NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCL 247
Query: 112 LLLD-VSPDRIIYA--NPCKPVSHIKYAASVGVNLTTVDS--VEELDKIRNWHPKSDLLI 166
L+L V + A CK + LTT + L H D
Sbjct: 248 LVLLNVQNAKAWNAFNLSCK------------ILLTTRFKQVTDFLSAATTTHISLDHHS 295
Query: 167 RIKSPDDSG---AKYPLDSKYGAGHHPQE---IMPLLKAAEASGLSVVGVSFHVGS---- 216
+PD+ KY LD + P+E P LS++ S G
Sbjct: 296 MTLTPDEVKSLLLKY-LDCRPQD--LPREVLTTNPRR-------LSIIAESIRDGLATWD 345
Query: 217 --EATNFAAFRGAIAAAKAVFDTAARTSNNKMRKLFKL--IFRE--LLPGSSLKVI 266
+ N I ++ V + A + RK+F +F +P L +I
Sbjct: 346 NWKHVNCDKLTTIIESSLNVLEPA------EYRKMFDRLSVFPPSAHIPTILLSLI 395
Score = 43.7 bits (102), Expect = 9e-05
Identities = 50/279 (17%), Positives = 85/279 (30%), Gaps = 110/279 (39%)
Query: 29 VTKDELTEFMQSTILKRQEFDEVPFYLMDLGV----------VVSLY------------- 65
V D+LT ++S+ L E E L V ++SL
Sbjct: 350 VNCDKLTTIIESS-LNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVV 408
Query: 66 NHMIS-------------NLPMIHPHYAVKCNPEPAL----LEALAALGSNFDCGSRSEI 108
N + ++P I+ VK E AL ++ FD
Sbjct: 409 NKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIP-KTFDSDD---- 463
Query: 109 EAVLLLDVSPDRIIYANPCKPVSHIKYAASVGVNLTTVDSVEE--------LD------K 154
L+ D+ Y SHI + +L ++ E LD K
Sbjct: 464 ----LIPPYLDQYFY-------SHIGH------HLKNIEHPERMTLFRMVFLDFRFLEQK 506
Query: 155 IRN----WHPKS---DLLIRIKSPDDSGAKYPLDSKYGAGHHPQ------EIMPLLKAAE 201
IR+ W+ + L ++K Y Y + P+ I+ L E
Sbjct: 507 IRHDSTAWNASGSILNTLQQLK-------FY---KPYICDNDPKYERLVNAILDFLPKIE 556
Query: 202 ASGLSVVGVSFHVGSEATNFAAFRGAIAAAKAVFDTAAR 240
+ + S+ T+ +A +A+F+ A +
Sbjct: 557 ENLIC---------SKYTDLLRI-ALMAEDEAIFEEAHK 585
Score = 29.4 bits (65), Expect = 2.4
Identities = 48/334 (14%), Positives = 97/334 (29%), Gaps = 84/334 (25%)
Query: 31 KD----ELTEFMQSTILKRQEFDEV---P------FYLMDL-------GVVVSLYNHMIS 70
+ ++ + +S IL ++E D + L V + +
Sbjct: 31 DNFDCKDVQDMPKS-ILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRI 89
Query: 71 NLPMIHPHYAVKCNPEPAL--------LEALAALGSNFDCGSRSEIEAVL-----LLDVS 117
N + + +P++ + L F + S ++ L LL++
Sbjct: 90 NYKFLMSPIKTEQR-QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELR 148
Query: 118 PDR--IIY-----------ANPCKPVSHIKYAASVGV---NLTTVDSVEELDKIRNWHPK 161
P + +I + C ++ + NL +S E + ++
Sbjct: 149 PAKNVLIDGVLGSGKTWVALDVCLSYK-VQCKMDFKIFWLNLKNCNSPETVLEMLQ---- 203
Query: 162 SDLLIRIKSPDDSGAKYPLDSKYGAGHHPQEIMPLLKAAE-ASGLSVVGVSFHVGSEATN 220
LL +I S + + + K E+ LLK+ + L V+ +V A
Sbjct: 204 -KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLL---NV-QNAKA 258
Query: 221 FAAF----------RGAIAAAKAVFDTAARTSNNKMRKLF-----KLIFRELLPGSSLKV 265
+ AF R T S + K + + L +
Sbjct: 259 WNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL---DCRP 315
Query: 266 ISEPGRFFAASAFTLYAQIIGKRVRGELR--EYW 297
P + II + +R L + W
Sbjct: 316 QDLPRE--VLTTNPRRLSIIAESIRDGLATWDNW 347
>2i9u_A Cytosine/guanine deaminase related protein; protein structure
initiative II (PSI-II), amidohydrol guanine deaminase;
HET: GUN; 2.05A {Clostridium acetobutylicum} SCOP:
b.92.1.4 c.1.9.9
Length = 439
Score = 31.8 bits (73), Expect = 0.38
Identities = 11/47 (23%), Positives = 18/47 (38%), Gaps = 9/47 (19%)
Query: 73 PMIHPHYAVKCNPEPALLEALAALGSNFDCG-------SRSEIEAVL 112
P+I P + C+ E L++ L L + + EI V
Sbjct: 197 PIITPRFVPSCSNE--LMDGLGKLSYKYRLPVQSHLSENLDEIAVVK 241
>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 = 31.8 bits (72), Expect = 0.57
Identities = 25/136 (18%), Positives = 42/136 (30%), Gaps = 22/136 (16%)
Query: 21 GGQRV--TTVVTKDELTEFMQSTILKRQEFDE----VPFYLMDLGVVVSLYNHMISNLPM 74
GG +V TT ++T++ QS K VPF V +L +
Sbjct: 500 GGAKVVVTTSRFSKQVTDYYQSIYAKYGAKGSTLIVVPFNQGSKQDVEALIEFIYD---- 555
Query: 75 IHPHYAVKCNPEPALLEALAALGSNF----DCGSRSEIEAVLLLDVSPDRIIYANPCKPV 130
+ + AA+ S+SE ++L + R++ V
Sbjct: 556 --TEKNGGLGWDLDAIIPFAAIPEQGIELEHIDSKSEFAHRIML-TNILRMMGC-----V 607
Query: 131 SHIKYAASVGVNLTTV 146
K A + V
Sbjct: 608 KKQKSARGIETRPAQV 623
>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP,
cyclic peptide, membrane protein; 3.80A {Mus musculus}
PDB: 3g61_A* 3g60_A*
Length = 1284
Score = 30.4 bits (69), Expect = 1.4
Identities = 13/38 (34%), Positives = 16/38 (42%)
Query: 205 LSVVGVSFHVGSEATNFAAFRGAIAAAKAVFDTAARTS 242
SV+ +F VG + N AF A AA VF
Sbjct: 332 FSVLIGAFSVGQASPNIEAFANARGAAYEVFKIIDNKP 369
>4aql_A Guanine deaminase; hydrolase, purine metabolism; HET: TXC; 1.99A
{Homo sapiens} PDB: 2uz9_A* 3e0l_A
Length = 476
Score = 30.0 bits (68), Expect = 1.5
Identities = 11/47 (23%), Positives = 21/47 (44%), Gaps = 9/47 (19%)
Query: 73 PMIHPHYAVKCNPEPALLEALAALGSNFDCG-------SRSEIEAVL 112
P++ P +++ C+ L+ L + D +R E+EAV
Sbjct: 230 PIVTPRFSLSCSET--LMGELGNIAKTRDLHIQSHISENRDEVEAVK 274
>1o7j_A L-asparaginase; atomic resolution, hydrolase; 1.0A {Erwinia
chrysanthemi} SCOP: c.88.1.1 PDB: 1hfj_A 1hfk_A* 1hg0_A
1hg1_A 1hfw_A* 1jsr_A* 1jsl_A 2gvn_A 1zcf_A 2hln_A*
2jk0_A
Length = 327
Score = 29.2 bits (66), Expect = 2.7
Identities = 6/28 (21%), Positives = 12/28 (42%)
Query: 184 YGAGHHPQEIMPLLKAAEASGLSVVGVS 211
GAG + ++ A G+ V+ +
Sbjct: 250 MGAGSVSVRGIAGMRKALEKGVVVMRST 277
>3cxj_A Uncharacterized protein; PSI-II, structural genomics structure
initiative; 2.80A {Methanothermobacter
thermautotrophicusorganism_taxid}
Length = 165
Score = 28.5 bits (63), Expect = 2.9
Identities = 11/59 (18%), Positives = 16/59 (27%), Gaps = 2/59 (3%)
Query: 153 DKIRNWHPKSDLLIRIKSPDDSGAKYPLDSKYGAGHHPQEIMPLLKAAEASGLSVVGVS 211
+ I+ W + D A++ Y H I P K VS
Sbjct: 6 EMIKKW--LDEEGFLRMEVPDENARFHYVVNYPEDHVIDIIQPAGKDDMILIACATSVS 62
>1i60_A IOLI protein; beta barrel, structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics, MCSG; 1.60A {Bacillus subtilis} SCOP: c.1.15.4
PDB: 1i6n_A
Length = 278
Score = 28.9 bits (65), Expect = 2.9
Identities = 5/45 (11%), Positives = 14/45 (31%)
Query: 196 LLKAAEASGLSVVGVSFHVGSEATNFAAFRGAIAAAKAVFDTAAR 240
L + + + + ++ V + I K + +T
Sbjct: 51 LAEYFQTHHIKPLALNALVFFNNRDEKGHNEIITEFKGMMETCKT 95
>3nxk_A Cytoplasmic L-asparaginase; structural genomics, center for
structural genomics of infec diseases, csgid,
alpha-beta-alpha sandwich; 2.40A {Campylobacter jejuni
subsp}
Length = 334
Score = 28.7 bits (65), Expect = 3.0
Identities = 10/28 (35%), Positives = 12/28 (42%)
Query: 184 YGAGHHPQEIMPLLKAAEASGLSVVGVS 211
GAG + +LK GL VV S
Sbjct: 254 SGAGSIHKNQKDVLKELLKKGLKVVVSS 281
>1wsa_A Asparaginase, asparagine amidohydrolase; periplasmic; 2.20A
{Wolinella succinogenes} SCOP: c.88.1.1
Length = 330
Score = 28.3 bits (64), Expect = 4.1
Identities = 8/28 (28%), Positives = 11/28 (39%)
Query: 184 YGAGHHPQEIMPLLKAAEASGLSVVGVS 211
G G+ L+ A SG+ V S
Sbjct: 248 MGNGNPFPLTQNALEKAAKSGVVVARSS 275
>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome
condensation, condensin, SMC, N subunit, ABC-type
ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus
ducreyi} PDB: 3euk_A*
Length = 483
Score = 28.7 bits (63), Expect = 4.3
Identities = 20/106 (18%), Positives = 27/106 (25%), Gaps = 15/106 (14%)
Query: 148 SVEELDKIRNWHPKSDLLIRIKSPDDSGAKYPLDSKYGAGHHPQEIMPLLKAAEASGLSV 207
EEL RN+ DL + G S G M +L S
Sbjct: 348 IGEELLDYRNYL---DLEVETLRGAY-GWMRAESSALSTGEAIGTGMSILLMVVQSWEEE 403
Query: 208 VGVSFHVGSEATNFAAFRGAIAAAKAVFDTAARTSNNKMRKLFKLI 253
+ + D AAR + LF+L
Sbjct: 404 SRRMRA-----------KDILPCRLLFLDQAARLDAMSINTLFELC 438
>4pga_A Glutaminase-asparaginase; bacterial amidohydrolase; 1.70A
{Pseudomonas SP} SCOP: c.88.1.1 PDB: 1djp_A* 1djo_A*
3pga_1
Length = 337
Score = 28.3 bits (64), Expect = 4.6
Identities = 8/54 (14%), Positives = 17/54 (31%), Gaps = 9/54 (16%)
Query: 184 YGAGHHPQEIMPLLKAAEASGLSVV-------GVSFHVGSEATNFAAFRGAIAA 230
G G ++P L+ +G ++ G +E + + A
Sbjct: 254 TGNGSVSSRVVPALQQLRKNGTQIIRSSHVNQGGFVLRNAEQPDDKN--DWVVA 305
>2wlt_A L-asparaginase; hydrolase; 1.40A {Helicobacter pylori} PDB: 2wt4_A
Length = 332
Score = 28.3 bits (64), Expect = 4.9
Identities = 6/28 (21%), Positives = 12/28 (42%)
Query: 184 YGAGHHPQEIMPLLKAAEASGLSVVGVS 211
G G+ + ++ A G+ +V S
Sbjct: 251 VGNGNVSAGFLKAMQEASQMGVVIVRSS 278
>1j6u_A UDP-N-acetylmuramate-alanine ligase MURC; structural genomics,
TM0231, JCSG, PSI, protein structure initiative; 2.30A
{Thermotoga maritima} SCOP: c.5.1.1 c.59.1.1 c.72.2.1
Length = 469
Score = 28.3 bits (64), Expect = 5.5
Identities = 7/14 (50%), Positives = 8/14 (57%)
Query: 187 GHHPQEIMPLLKAA 200
H P EI LL+ A
Sbjct: 331 AHTPDEIRNLLQTA 344
>1nzj_A Hypothetical protein YADB; Zn cluster, glutamyl T-RNA synthetase,
structural genomics, unknown function; 1.50A
{Escherichia coli} SCOP: c.26.1.1 PDB: 2zlz_A* 4a91_A*
Length = 298
Score = 27.9 bits (63), Expect = 6.4
Identities = 17/80 (21%), Positives = 29/80 (36%), Gaps = 20/80 (25%)
Query: 58 LGVVVSLYNHMISNLPMIHP---------HYAV---KCNPEPALLEALAALG----SNFD 101
G V Y H LP+ ++A K +P P L+ AL LG +++
Sbjct: 208 FGWKVPDYIH----LPLALNPQGAKLSKQNHAPALPKGDPRPVLIAALQFLGQQAEAHWQ 263
Query: 102 CGSRSEIEAVLLLDVSPDRI 121
S +I + + +
Sbjct: 264 DFSVEQILQSAVKNWRLTAV 283
>2f00_A UDP-N-acetylmuramate--L-alanine ligase; amide bond ligase, ATPase,
bacterial cell WALL; 2.50A {Escherichia coli}
Length = 491
Score = 27.9 bits (63), Expect = 6.8
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 187 GHHPQEIMPLLKAA 200
GHHP E+ +KAA
Sbjct: 353 GHHPTEVDATIKAA 366
>1p3d_A UDP-N-acetylmuramate--alanine ligase; alpha/beta protein; HET: UMA
ANP; 1.70A {Haemophilus influenzae} SCOP: c.5.1.1
c.59.1.1 c.72.2.1 PDB: 1gqq_A* 1p31_A* 1gqy_A*
Length = 475
Score = 27.9 bits (63), Expect = 7.8
Identities = 8/14 (57%), Positives = 10/14 (71%)
Query: 187 GHHPQEIMPLLKAA 200
GHHP E+ +KAA
Sbjct: 347 GHHPTEVGVTIKAA 360
>2rjo_A Twin-arginine translocation pathway signal protei; PSI-2, NYSGXRC,
twin arginine translocation pathway signal P structural
genomics; HET: GAL; 2.05A {Burkholderia phytofirmans}
Length = 332
Score = 27.4 bits (61), Expect = 8.6
Identities = 13/82 (15%), Positives = 26/82 (31%), Gaps = 21/82 (25%)
Query: 134 KYAASVGVNLTTVDS----VEELDKIRNW-HPKSDLLIRIKSPDDSGAKYPLDSKYGAGH 188
+A SVG+ + + + + IR L+ P+DS
Sbjct: 29 SFAKSVGLPYVPLTTEGSSEKGIADIRALLQKTGGNLVLNVDPNDSAD------------ 76
Query: 189 HPQEIMPLLKAAEASGLSVVGV 210
+++A +G V +
Sbjct: 77 ----ARVIVEACSKAGAYVTTI 94
>1t90_A MMSDH, probable methylmalonate-semialdehyde dehydrogenase;
oxidoreductase, NAD; HET: NAD; 2.50A {Bacillus subtilis}
Length = 486
Score = 27.6 bits (62), Expect = 8.8
Identities = 10/38 (26%), Positives = 16/38 (42%), Gaps = 3/38 (7%)
Query: 222 AAFRGAIAAAKAVFDTAARTSNNK-MRKLFKLIFRELL 258
A A F T ++ + + R LF F++LL
Sbjct: 43 EDIDYAAQTAAEAFKTWSKVAVPRRARILFN--FQQLL 78
>4e4g_A Methylmalonate-semialdehyde dehydrogenase; structural genomics,
protein structure INI nysgrc, PSI-biology; 2.90A
{Sinorhizobium meliloti}
Length = 521
Score = 27.6 bits (62), Expect = 8.8
Identities = 11/33 (33%), Positives = 16/33 (48%), Gaps = 3/33 (9%)
Query: 227 AIAAAKAVFDTAARTSNNK-MRKLFKLIFRELL 258
A+ +AKA A T+ + R K F +LL
Sbjct: 69 AVESAKAAQPKWAATNPQRRARVFMK--FVQLL 99
>1nns_A L-asparaginase II; amidrohydrolase, crystallographic comparison
hydrolase; 1.95A {Escherichia coli} SCOP: c.88.1.1 PDB:
3eca_A 1ho3_A 1jaz_A 1ihd_A 1jja_A 4eca_A*
Length = 326
Score = 27.1 bits (61), Expect = 9.6
Identities = 8/28 (28%), Positives = 13/28 (46%)
Query: 184 YGAGHHPQEIMPLLKAAEASGLSVVGVS 211
G G+ + + L A +G +VV S
Sbjct: 244 VGNGNLYKSVFDTLATAAKTGTAVVRSS 271
>3zu3_A Putative reductase YPO4104/Y4119/YP_4011; oxidoreductase, fatty
acid biosynthesis II, short-chain dehydrogenase
reductase superfamily; HET: NAI; 1.80A {Yersinia pestis}
PDB: 3zu4_A* 3zu5_A* 3zu2_A*
Length = 405
Score = 27.4 bits (60), Expect = 9.7
Identities = 14/65 (21%), Positives = 23/65 (35%), Gaps = 3/65 (4%)
Query: 186 AGHHPQEIMPLLKAAE--ASGLSVVGVSFHVGSEATNFAAFRGAIAAAKAVFDTAARTSN 243
G Q + L A A G + ++G + T+ + G+I AAK D
Sbjct: 203 GGEDWQMWIDALLDAGVLAEGAQTTAFT-YLGEKITHDIYWNGSIGAAKKDLDQKVLAIR 261
Query: 244 NKMRK 248
+
Sbjct: 262 ESLAA 266
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
0.319 0.134 0.400
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: 6,401,205
Number of extensions: 401082
Number of successful extensions: 1070
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1009
Number of HSP's successfully gapped: 65
Length of query: 405
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 309
Effective length of database: 4,021,377
Effective search space: 1242605493
Effective search space used: 1242605493
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: 58 (26.1 bits)