RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013461
(442 letters)
>3a2b_A Serine palmitoyltransferase; vitamin B6-dependent enzyme fold type
I, acyltransferase, PY phosphate; HET: PLP; 2.30A
{Sphingobacterium multivorum}
Length = 398
Score = 275 bits (707), Expect = 3e-89
Identities = 101/383 (26%), Positives = 177/383 (46%), Gaps = 61/383 (15%)
Query: 92 EPPVLESAAGPHTIISGKEVVNFASANYLGLIGHEKLLESCTSALEKYGVGSCGPRGFYG 151
++S I G+ V+ F S +YLGL +++++ ALEKYG G G R G
Sbjct: 26 YFRPIQSKQDTEVKIDGRRVLMFGSNSYLGLTTDTRIIKAAQDALEKYGTGCAGSRFLNG 85
Query: 152 TIDVHLDCEARIAKFLGTPDSILYSYGLSTMFSAIPCFCKKGDLIVADEGVHWGIQNGLY 211
T+D+H++ E +++ ++G +IL+S G + + C + D I+ DE H I +G
Sbjct: 86 TLDIHVELEEKLSAYVGKEAAILFSTGFQSNLGPLSCLMGRNDYILLDERDHASIIDGSR 145
Query: 212 LSRSTVVYFKHNDMDSLRNTLERVTADNKR------------------------------ 241
LS S V+ + HN+M+ LR L R+ D+ +
Sbjct: 146 LSFSKVIKYGHNNMEDLRAKLSRLPEDSAKLICTDGIFSMEGDIVNLPELTSIANEFDAA 205
Query: 242 -----SNSFGVLGRSGRGLTEHCGVPVDKIDIVTAAMGHALATEGGFCTGSARVVDHQRL 296
++S GV+G G G H G+ D +D++ +LA+ GGF G A V+D +
Sbjct: 206 VMVDDAHSLGVIGHKGAGTASHFGL-NDDVDLIMGTFSKSLASLGGFVAGDADVIDFLKH 264
Query: 297 SSSGYVFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDIHGLSIASNPE 356
++ +FSAS+ P ++ + A+++++ P+ I KL KNT + L D G + E
Sbjct: 265 NARSVMFSASMTPASVASTLKALEIIQNEPEHIEKLWKNTDYAKAQLLDH-GFDLG-ATE 322
Query: 357 SPIVFLILEKSTGSMKNDLQLLEDIADWALKEDGVFV------VTSKRSMLDKCRLPVGI 410
SPI+ + + S + + + L++DGVFV ++ I
Sbjct: 323 SPILPIFI----RSNEKTFWVTK-----MLQDDGVFVNPVVSPAVPA----EESL----I 365
Query: 411 RLFVSAAHSEADLVKACESLKRI 433
R + A H+ + +A E + ++
Sbjct: 366 RFSLMATHTYDQIDEAIEKMVKV 388
>2w8t_A SPT, serine palmitoyltransferase; HET: LLP; 1.25A {Sphingomonas
paucimobilis} PDB: 2w8u_A* 2w8w_A* 2xbn_A* 2w8j_A*
2w8v_A* 2jg2_A* 2jgt_A 2x8u_A*
Length = 427
Score = 260 bits (667), Expect = 5e-83
Identities = 91/387 (23%), Positives = 154/387 (39%), Gaps = 62/387 (16%)
Query: 90 RCEPPVLESAAGP-HTIISGKEVVNFASANYLGLIGHEKLLESCTSALEKYGVGSCGPRG 148
V+E P +I GK+ + + NY+G+ ++ + ALEK+G G+CG R
Sbjct: 44 DPFAIVMEQVKSPTEAVIRGKDTILLGTYNYMGMTFDPDVIAAGKEALEKFGSGTCGSRM 103
Query: 149 FYGTIDVHLDCEARIAKFLGTPDSILYSYGLSTMFSAIPCFCKKGDLIVADEGVHWGIQN 208
GT H++ E + F GT +I++S G I KG+ ++ D H I +
Sbjct: 104 LNGTFHDHMEVEQALRDFYGTTGAIVFSTGYMANLGIISTLAGKGEYVILDADSHASIYD 163
Query: 209 GLYLSRSTVVYFKHNDMDSLRNTLERVTADNKR--------------------------- 241
G + +V F+HN ++ L L R+ + +
Sbjct: 164 GCQQGNAEIVRFRHNSVEDLDKRLGRLPKEPAKLVVLEGVYSMLGDIAPLKEMVAVAKKH 223
Query: 242 --------SNSFGVLGRSGRGLTEHCGVPVDKIDIVTAAMGHALATEGGFCTGSARVVDH 293
++S G G +GRG+ E G+ +ID V ++ T GGF + +
Sbjct: 224 GAMVLVDEAHSMGFFGPNGRGVYEAQGL-EGQIDFVVGTFSKSVGTVGGFVVSNHPKFEA 282
Query: 294 QRLSSSGYVFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDIHGLSIA- 352
RL+ Y+F+ASLPP + + A T+I L + +L N L GL + G +
Sbjct: 283 VRLACRPYIFTASLPPSVVATATTSIRKLMTAHEKRERLWSNARALHGGLKAM-GFRLGT 341
Query: 353 SNPESPIVFLILEKSTGSMKNDLQLLEDIADWALKEDGVFV------VTSKRSMLDKCRL 406
+S IV ++LE D + + AL + G++V T
Sbjct: 342 ETCDSAIVAVMLE--------DQEQAAMMWQ-ALLDGGLYVNMARPPATPA----GTFL- 387
Query: 407 PVGIRLFVSAAHSEADLVKACESLKRI 433
+R + A H+ A + +
Sbjct: 388 ---LRCSICAEHTPAQIQTVLGMFQAA 411
>1fc4_A 2-amino-3-ketobutyrate conenzyme A ligase; 2-amino-3-ketobutyrate
COA ligase, pyridoxal phosphate, COEN transferase,
structural genomics; HET: PLP; 2.00A {Escherichia coli}
SCOP: c.67.1.4
Length = 401
Score = 254 bits (651), Expect = 6e-81
Identities = 101/387 (26%), Positives = 165/387 (42%), Gaps = 65/387 (16%)
Query: 92 EPPVLESAAGPH-TIISGKEVVNFASANYLGLIGHEKLLESCTSALEKYGVGSCGPRGFY 150
E ++ SA T+ G V+NF + NYLGL H L+ + + ++ +G G R
Sbjct: 27 EERIITSAQQADITVADGSHVINFCANNYLGLANHPDLIAAAKAGMDSHGFGMASVRFIC 86
Query: 151 GTIDVHLDCEARIAKFLGTPDSILYSYGLSTMFSAIPCFCKKGDLIVADEGVHWGIQNGL 210
GT D H + E ++A FLG D+ILYS D I++D H I +G+
Sbjct: 87 GTQDSHKELEQKLAAFLGMEDAILYSSCFDANGGLFETLLGAEDAIISDALNHASIIDGV 146
Query: 211 YLSRSTVVYFKHNDMDSLRNTLERVTADNKR----------------------------- 241
L ++ + +NDM L L+ R
Sbjct: 147 RLCKAKRYRYANNDMQELEARLKEAREAGARHVLIATDGVFSMDGVIANLKGVCDLADKY 206
Query: 242 --------SNSFGVLGRSGRGLTEHCGVPVDKIDIVTAAMGHALA-TEGGFCTGSARVVD 292
S++ G +G +GRG E+C V ++DI+T +G AL GG+ VV+
Sbjct: 207 DALVMVDDSHAVGFVGENGRGSHEYCDVM-GRVDIITGTLGKALGGASGGYTAARKEVVE 265
Query: 293 HQRLSSSGYVFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDIHGLSIA 352
R S Y+FS SL P + +A+I ++++E +L +L N R +S G ++A
Sbjct: 266 WLRQRSRPYLFSNSLAPAIVAASIKVLEMVEAGSELRDRLWANARQFREQMSAA-GFTLA 324
Query: 353 SNPESPIVFLILEKSTGSMKNDLQLLEDIADWALKEDGVFV------VTSKRSMLDKCRL 406
+ I+ ++L G + L+++G++V V K + R
Sbjct: 325 -GADHAIIPVML----GDAVVAQKFAR-----ELQKEGIYVTGFFYPVVPK----GQAR- 369
Query: 407 PVGIRLFVSAAHSEADLVKACESLKRI 433
IR +SAAH+ + +A E+ RI
Sbjct: 370 ---IRTQMSAAHTPEQITRAVEAFTRI 393
>3tqx_A 2-amino-3-ketobutyrate coenzyme A ligase; energy metabolism,
transferase; HET: PLP; 2.30A {Coxiella burnetii}
Length = 399
Score = 254 bits (651), Expect = 7e-81
Identities = 99/391 (25%), Positives = 175/391 (44%), Gaps = 73/391 (18%)
Query: 92 EPPVLESAAGPHTIISGKEVVNFASANYLGLIGHEKLLESCTSALEKYGVGSCGPRGFYG 151
++ S + KEV+NF + NYLGL H L+++ + +E+YG G R G
Sbjct: 26 SERIITSPQNAEIKVGEKEVLNFCANNYLGLADHPALIKTAQTVVEQYGFGMASVRFICG 85
Query: 152 TIDVHLDCEARIAKFLGTPDSILYSYGLSTMFSAIPCFCKKGDLIVADEGVHWGIQNGLY 211
T +H + E I++FLGT D+ILYS D I++DE H I +G+
Sbjct: 86 TQTIHKELEKDISEFLGTDDTILYSSCFDANGGLFETLLGPEDAIISDELNHASIIDGIR 145
Query: 212 LSRSTVVYFKHNDMDSLRNTLERVTADNKR------------------------------ 241
L ++ +K+N M L L+ R
Sbjct: 146 LCKAQRYRYKNNAMGDLEAKLKEADEKGARFKLIATDGVFSMDGIIADLKSICDLADKYN 205
Query: 242 -------SNSFGVLGRSGRGLTEHCGVPVDKIDIVTAAMGHALA-TEGGFCTGSARVVDH 293
S++ G +G +GRG E+CGV D++DI+T +G AL GG+ +G +++
Sbjct: 206 ALVMVDDSHAVGFIGENGRGTPEYCGV-ADRVDILTGTLGKALGGASGGYTSGHKEIIEW 264
Query: 294 QRLSSSGYVFSASLPPYLASAAITAIDVLE-ENPDLITKLKKNTAILRTGLSDIHGLSIA 352
R S Y+FS ++ P + + ++ +++L+ E P L +L++N+ R G+ + G +
Sbjct: 265 LRNRSRPYLFSNTVAPVIVATSLKVLELLKTEGPQLRKQLQENSRYFRAGMEKL-GFQLV 323
Query: 353 SNPESPIVFLILEKSTGSMKNDLQLLEDIADWALKEDGVFV-------VTSKRSMLDKCR 405
PI+ ++L G + + + L ++G++V V
Sbjct: 324 PG-NHPIIPVML----GDAQLATNMAD-----HLLQEGIYVVGFSYPVV----------- 362
Query: 406 LPVG---IRLFVSAAHSEADLVKACESLKRI 433
P+G IR+ +SA H++ L +A E+ ++
Sbjct: 363 -PMGKARIRVQMSAVHTQQQLDRAIEAFGQV 392
>3kki_A CAI-1 autoinducer synthase; quorum sensing, CQSA, P virulence,
acyltransferase, aminotransferase, pyridoxal PHO
transferase; HET: PLP; 1.80A {Vibrio cholerae} PDB:
3hqt_A* 2wk9_A* 2wk8_A* 2wka_A* 2wk7_A
Length = 409
Score = 242 bits (621), Expect = 2e-76
Identities = 77/382 (20%), Positives = 134/382 (35%), Gaps = 66/382 (17%)
Query: 95 VLESAAGPHTII---SGKEVVNFASANYLGLIGHEKLLESCTSALEKYGVGSCGPRGFYG 151
+ G H ++ + + + S +YL L H + +L + F
Sbjct: 42 FDINKNGKHLVLGKQASPDDIILQSNDYLALANHPLIKARLAKSLLEEQQSLFMSASFLQ 101
Query: 152 TIDVHLDCEARIAKFLGTPDSILYSYGLSTMFSAIPCFCKKGDLIVADEGVHWGIQNGLY 211
E R+AKF G + +L G + + C+ + D H + G
Sbjct: 102 NDYDKPMIEKRLAKFTGFDECLLSQSGWNANVGLLQTICQPNTNVYIDFFAHMSLWEGAR 161
Query: 212 LSRSTVVYFKHNDMDSLRNTLER------VT----------------ADNKR-------- 241
+ + F HN+ D LR ++R V + +
Sbjct: 162 YANAQAHPFMHNNCDHLRMLIQRHGPGIIVVDSIYSTLGTIAPLAELVNISKEFGCALLV 221
Query: 242 --SNSFGVLGRSGRGLTEHCGVPVDKIDIVTAAMGHALATEGGFCTGSARVVDHQRLSSS 299
S+S G G +G GL G+ ++ +TA++ A G + V S
Sbjct: 222 DESHSLGTHGPNGAGLLAELGL-TREVHFMTASLAKTFAYRAGAIWCNNEVNRCVPFISY 280
Query: 300 GYVFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDIHGLSIASNPESPI 359
+FS++L PY A+ T ++++E + L + LR GLS + GL+I S ES I
Sbjct: 281 PAIFSSTLLPYEAAGLETTLEIIESADNRRQHLDRMARKLRIGLSQL-GLTIRS--ESQI 337
Query: 360 VFLILEKSTGSMKNDLQLLEDIADWALKEDGVFVV-----TSKRSMLDKCRLPVG---IR 411
+ L D + E + D L+ +GVF IR
Sbjct: 338 IGLET--------GDERNTEKVRD-YLESNGVFGSVFCRPA----------TSKNKNIIR 378
Query: 412 LFVSAAHSEADLVKACESLKRI 433
L +++ ++ + K E
Sbjct: 379 LSLNSDVNDEQIAKIIEVCSDA 400
>1bs0_A Protein (8-amino-7-oxonanoate synthase); PLP-dependent acyl-COA
synthase, biotin biosynthesis, 8-AMIN oxonanoate
synthase; 1.65A {Escherichia coli} SCOP: c.67.1.4 PDB:
2g6w_A* 1dje_A* 1dj9_A*
Length = 384
Score = 237 bits (608), Expect = 1e-74
Identities = 91/384 (23%), Positives = 146/384 (38%), Gaps = 68/384 (17%)
Query: 94 PVLESAAGPHTIISGKEVVNFASANYLGLIGHEKLLESCTSALEKYGVGSCGPRGFYGTI 153
+ AG + ++ +NF+S +YLGL H +++ + E++G+GS G G
Sbjct: 24 YPVAQGAGRWLVADDRQYLNFSSNDYLGLSHHPQIIRAWQQGAEQFGIGSGGSGHVSGYS 83
Query: 154 DVHLDCEARIAKFLGTPDSILYSYGLSTMFSAIPCFCKKGDLIVADEGVHWGIQNGLYLS 213
VH E +A++LG ++L+ G + + I K D I AD H + LS
Sbjct: 84 VVHQALEEELAEWLGYSRALLFISGFAANQAVIAAMMAKEDRIAADRLSHASLLEAASLS 143
Query: 214 RSTVVYFKHNDMDSLRNTLERVTADNK-------------------------RSN----- 243
S + F HND+ L L + + N
Sbjct: 144 PSQLRRFAHNDVTHLARLLASPCPGQQMVVTEGVFSMDGDSAPLAEIQQVTQQHNGWLMV 203
Query: 244 ----SFGVLGRSGRGLTEHCGVPVDKIDIVTAAMGHALATEGGFCTGSARVVDHQRLSSS 299
GV+G GRG V K +++ G G S+ V D+ +
Sbjct: 204 DDAHGTGVIGEQGRGSCWLQKV---KPELLVVTFGKGFGVSGAAVLCSSTVADYLLQFAR 260
Query: 300 GYVFSASLPPYLASAAITAIDVL--EENPDLITKLKKNTAILRTGLSDIHGLSIASNPES 357
++S S+PP A A ++ V+ +E KL R G+ D ++A + S
Sbjct: 261 HLIYSTSMPPAQAQALRASLAVIRSDEGDARREKLAALITRFRAGVQD-LPFTLA-DSCS 318
Query: 358 PIVFLILEKSTGSMKNDLQLLEDIADWALKEDGVFVV-----TSKRSMLDKCRLPVG--- 409
I LI+ G LQL E L++ G +V T +P G
Sbjct: 319 AIQPLIV----GDNSRALQLAE-----KLRQQGCWVTAIRPPT----------VPAGTAR 359
Query: 410 IRLFVSAAHSEADLVKACESLKRI 433
+RL ++AAH D+ + E L
Sbjct: 360 LRLTLTAAHEMQDIDRLLEVLHGN 383
>2bwn_A 5-aminolevulinate synthase; tetrapyrrole biosynthesis, heme
biosynthesis, pyridoxal PHOS dependent, transferase,
acyltransferase; HET: LLP; 2.1A {Rhodobacter capsulatus}
SCOP: c.67.1.4 PDB: 2bwo_A* 2bwp_A*
Length = 401
Score = 219 bits (561), Expect = 1e-67
Identities = 88/398 (22%), Positives = 149/398 (37%), Gaps = 85/398 (21%)
Query: 95 VLESAAGPH-------TIISGKEVVNFASANYLGLIGHEKLLESCTSALEKYGVGSCGPR 147
+E G +++ + +YLG+ H +L + ALE G GS G R
Sbjct: 25 DIEREKGAFPKAQWNRPDGGKQDITVWCGNDYLGMGQHPVVLAAMHEALEAVGAGSGGTR 84
Query: 148 GFYGTIDVHLDCEARIAKFLGTPDSILYSYG-------LSTMFSAIPCFCKKGDLIVADE 200
GT H EA IA ++++S LST+ P G +I +D
Sbjct: 85 NISGTTAYHRRLEAEIAGLHQKEAALVFSSAYNANDATLSTLRVLFP-----GLIIYSDS 139
Query: 201 GVHWGIQNGLYLSRSTVVYFKHNDMDSLRNTLERVTADNKR------------------- 241
H + G+ + F+HND+ LR + +
Sbjct: 140 LNHASMIEGIKRNAGPKRIFRHNDVAHLRELIAADDPAAPKLIAFESVYSMDGDFGPIKE 199
Query: 242 ----------------SNSFGVLGRSGRGLTEHCGVPVDKIDIVTAAMGHALATEGGFCT 285
++ G+ G G G+ E G+ + +IDI + A GG+
Sbjct: 200 ICDIAEEFGALTYIDEVHAVGMYGPRGAGVAERDGL-MHRIDIFNGTLAKAYGVFGGYIA 258
Query: 286 GSARVVDHQRLSSSGYVFSASLPPYLASAAITAIDVLE--ENPDLITKLKKNTAILRTGL 343
SAR+VD R + G++FS SLPP +A+ A +I L+ E L + + +L+ L
Sbjct: 259 ASARMVDAVRSYAPGFIFSTSLPPAIAAGAQASIAFLKTAEGQKLRDAQQMHAKVLKMRL 318
Query: 344 SDIHGLSIASNPESPIVFLILEKSTGSMKNDLQLLEDIADWALKEDGVFVV-----TSKR 398
+ G+ I + S IV +++ D + ++D L + GV+V T
Sbjct: 319 KAL-GMPIIDHG-SHIVPVVI--------GDPVHTKAVSDMLLSDYGVYVQPINFPT--- 365
Query: 399 SMLDKCRLPVG---IRLFVSAAHSEADLVKACESLKRI 433
+P G +R S H + ++ +
Sbjct: 366 -------VPRGTERLRFTPSPVHDLKQIDGLVHAMDLL 396
>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 = 48.1 bits (114), Expect = 6e-06
Identities = 72/469 (15%), Positives = 134/469 (28%), Gaps = 172/469 (36%)
Query: 62 RPLT----KKEIDELCDEWVPESLIPPIIEEMRCE-----PPVLESAAGPHTIISGKEVV 112
RPLT E L VP + +++ + P E A + E+V
Sbjct: 7 RPLTLSHGSLEHVLL----VPTASFFIA-SQLQEQFNKILPEPTEGFAADDEPTTPAELV 61
Query: 113 NFASANYLGLIGHE----------KLLESCTSALEKYGVGSCGPRGFYGTIDVHLDCEAR 162
+LG + ++L C + E + D+H A
Sbjct: 62 ----GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFE---------NCYLEGNDIH----AL 104
Query: 163 IAKFLGTPDSILYSYGLSTMFSAIPCFCKKGDLIVADEGVHWGIQNGLYLSRSTVVYFKH 222
AK L D+ L K +LI +R K
Sbjct: 105 AAKLLQENDTTL---------------VKTKELIKN-----------YITARIMA---KR 135
Query: 223 NDMDSLRNTLERVTADNKRSNSFGVLGRSGRGLTEHCGVPVDKI------------DIVT 270
+ L R + + G G+G T+ +++ D++
Sbjct: 136 PFDKKSNSALFR-AVGEGNAQLVAIFG--GQGNTDDY---FEELRDLYQTYHVLVGDLIK 189
Query: 271 AAMGHALATEGGFCTGSARVVDHQRLSSSGY-VFS-----ASLPP--YLASAAITAIDVL 322
+ L+ +D +++ + G + ++ P YL S I+
Sbjct: 190 FSAET-LSEL------IRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISC---- 238
Query: 323 EENPDLIT------------KLKKNTAILRT---GLSDIHG--------LSIASNPES-- 357
P LI L LR+ G + H ++ + ES
Sbjct: 239 ---P-LIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT-GHSQGLVTAVAIAETDSWESFF 293
Query: 358 -------PIVFLI-LE--KSTGSMKNDLQLLEDIADWALKEDGV----FVVTS-KRSMLD 402
++F I + ++ + +LED + +GV +++ + +
Sbjct: 294 VSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLE---NNEGVPSPMLSISNLTQEQVQ 350
Query: 403 K------CRLP----VGIRL------FVSAAHSEADLVKACESLKRISA 435
LP V I L V + + L +L++ A
Sbjct: 351 DYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQ-SLYGLNLTLRKAKA 398
Score = 37.0 bits (85), Expect = 0.013
Identities = 19/90 (21%), Positives = 37/90 (41%), Gaps = 10/90 (11%)
Query: 253 RGLTEHCGVPVDKIDIVTAAMGHAL---ATEGGFCTGSARVVDHQRLSSSGYVFSAS--- 306
RG+T VP D++ M A+ F + + V + +G++
Sbjct: 1789 RGMTMQVAVPRDELGRSNYGMI-AINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYN 1847
Query: 307 LPP--YLASAAITAIDVLEENPDLITKLKK 334
+ Y+A+ + A+D + + I KL+K
Sbjct: 1848 VENQQYVAAGDLRALDTVTNVLNFI-KLQK 1876
Score = 36.2 bits (83), Expect = 0.026
Identities = 69/435 (15%), Positives = 124/435 (28%), Gaps = 131/435 (30%)
Query: 19 ALDSPSAG-AVVFG--------------VHISGHLFVEVLLLVVILFLLSQKSYKPPKRP 63
A+ +A +FG ++ + H+ V L+ L
Sbjct: 148 AVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEK 207
Query: 64 LTKKEIDELCDEWV--PESLIPPIIEEMRCEPPV------LESAAGPHTII----SGKEV 111
+ + ++ L EW+ P + P ++ P+ + A H ++ G
Sbjct: 208 VFTQGLNIL--EWLENPSN-TPD--KDYLLSIPISCPLIGVIQLA--HYVVTAKLLGFTP 260
Query: 112 VNFASANYLGLIGH----------------EKLLESCTSALEK-YGVGSCGPRGF---YG 151
S G GH E S A+ + +G +
Sbjct: 261 GELRS-YLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSL 319
Query: 152 TIDVHLDCEARIAKFLGTPDSILYSYGLS--TMFSAIPCFCKKGDLIVADEGVHWGIQNG 209
+ D G P +L L+ + + A + V + NG
Sbjct: 320 PPSILEDSLENNE---GVPSPMLSISNLTQEQVQDYVNKTNSHLP---AGKQVEISLVNG 373
Query: 210 LYLSRSTVV--YFKHNDMDSLRNTLERVTADNKRSNS---FGVLGRSGRGLT-EHCGVPV 263
+++ VV + + L TL + A + S F S R L + +PV
Sbjct: 374 ---AKNLVVSGPPQ--SLYGLNLTLRKAKAPSGLDQSRIPF-----SERKLKFSNRFLPV 423
Query: 264 -------------DKI--DIVTAAM---GHALA-----TEGGFCTGSARVVDHQRLSSSG 300
D I D+V + + T GS D + LS
Sbjct: 424 ASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTF----DGS----DLRVLS--- 472
Query: 301 YVFSASLPPYLASAAIT-AID-----------VLEENPDLITKLKKNTAILR--TGLSDI 346
S+ + I + +L+ P + L T + TG+ I
Sbjct: 473 ----GSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDGTGVRVI 528
Query: 347 HGLSIASNPESPIVF 361
++ NP+ F
Sbjct: 529 VAGTLDINPDDDYGF 543
Score = 34.3 bits (78), Expect = 0.11
Identities = 40/202 (19%), Positives = 64/202 (31%), Gaps = 76/202 (37%)
Query: 273 MGHALATEGGFCTGSARVV----DHQRLSSSGYVFSASLPPYLASAAITAIDVLEENPDL 328
MG L + +A+ V D+ + G FS +D++ NP
Sbjct: 1631 MGMDLYKT----SKAAQDVWNRADNHFKDTYG--FSI-------------LDIVINNPVN 1671
Query: 329 IT---------KLKKN-TAILRTGLSDIHGLSIASNPESPIVFLILEKSTGSM----KND 374
+T ++++N +A++ + D I I E ST K
Sbjct: 1672 LTIHFGGEKGKRIRENYSAMIFETIVD------GKLKTEKIFKEINEHSTSYTFRSEKGL 1725
Query: 375 L------Q---LLEDIADWA-LKEDGVFVVTSKRSMLDKCRLPVGIRLFVSAAHS--E-- 420
L Q L + A + LK G+ + F A HS E
Sbjct: 1726 LSATQFTQPALTLMEKAAFEDLKSKGLIPADA---------------TF--AGHSLGEYA 1768
Query: 421 ADLVKACESLKRISAV-VLRDR 441
A L + + S V V+ R
Sbjct: 1769 A-LASLADVMSIESLVEVVFYR 1789
>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 = 41.8 bits (97), Expect = 4e-04
Identities = 55/391 (14%), Positives = 100/391 (25%), Gaps = 134/391 (34%)
Query: 60 PKRPLTKKEIDELCDEWVPESLIPPIIEEMRCEPPVLESAAGPHTIISGKEVVNFASANY 119
PK L+K+EID + + L S +E+V
Sbjct: 42 PKSILSKEEIDHIIMS-------KDAVSGTLRLFWTLLS--------KQEEMV------- 79
Query: 120 LGLIGHEKLLESCTSALEK-YGVGSCGPRGFYGTIDVHLDCEARIAKFLGTPDSILYSYG 178
+K +E L Y F + + + + + +Y
Sbjct: 80 ------QKFVE---EVLRINY--------KFLMS-PIKTEQRQP------SMMTRMYIEQ 115
Query: 179 LSTMFSAIPCFCKKGDLIVADEGVHWGIQNGLYLSRSTVVYFKHNDMDSLRNTLERVTAD 238
+++ F K +SR LR L +
Sbjct: 116 RDRLYNDNQVFAK------------------YNVSR-------LQPYLKLRQALLEL--- 147
Query: 239 NKRSNSFGVLGRSGRGLTEH----CGVPVDKIDIVTAAMGHALATEGGFCTGSARVVDHQ 294
R + + G K +A + Q
Sbjct: 148 -----------RPAKNVLIDGVLGSG----K---------TWVALD------VCLSYKVQ 177
Query: 295 RLSSSGYVFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDIHGLSIASN 354
+F +L + VLE L+ ++ N T SD H +I
Sbjct: 178 CKMDFK-IFWLNL-----KNCNSPETVLEMLQKLLYQIDPNW----TSRSD-HSSNIKLR 226
Query: 355 PESP---IVFLILEKSTGSMKNDLQLLEDIAD-WALKE-DG---VFVVTSKRSMLDKCRL 406
S + L+ K +N L +L ++ + A + + + T + + D L
Sbjct: 227 IHSIQAELRRLLKSK---PYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTD--FL 281
Query: 407 PVGIRLFVSAAHSEADLVKACESLKRISAVV 437
+S H L E + +
Sbjct: 282 SAATTTHISLDHHSMTLTPD-EVKSLLLKYL 311
Score = 39.1 bits (90), Expect = 0.003
Identities = 38/248 (15%), Positives = 76/248 (30%), Gaps = 59/248 (23%)
Query: 8 FVNTMLNRVKLALDSPSAGAVV--FGVHISGHLFVEVLLL----VVILFLLSQKSYKPP- 60
+ L L + F + ++LL V FL + +
Sbjct: 238 LKSKPYENCLLVLLNVQNAKAWNAFNLS------CKILLTTRFKQVTDFLSAATTTHISL 291
Query: 61 ---KRPLTKKEIDELCDEWV---PESLIPPIIEEMRCEPPVLESAAGPHTIISGKEVVNF 114
LT E+ L +++ P+ L P E + P L +II + + +
Sbjct: 292 DHHSMTLTPDEVKSLLLKYLDCRPQDL-PR--EVLTTNPRRL-------SII-AESIRDG 340
Query: 115 AS-ANYLGLIGHEKL---LESCTSALEKYGVGSCGPRGFYGTIDVHLDCEARI-AKFLGT 169
+ + + +KL +ES + LE R + + V A I L
Sbjct: 341 LATWDNWKHVNCDKLTTIIESSLNVLEPAEY-----RKMFDRLSVFPP-SAHIPTILL-- 392
Query: 170 PDSILYSYGLSTMFSAIPCFCKKGDLIVADE-----GVHWGIQNGLYLSRSTVVYFKHND 224
S+++ + + + K L+ + +YL K +
Sbjct: 393 --SLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIP-----SIYLELKV----KLEN 441
Query: 225 MDSLRNTL 232
+L ++
Sbjct: 442 EYALHRSI 449
>1sff_A 4-aminobutyrate aminotransferase; enzyme complexes; HET: IK2; 1.90A
{Escherichia coli} SCOP: c.67.1.4 PDB: 1sf2_A* 1szk_A*
1szu_A* 1szs_A*
Length = 426
Score = 37.5 bits (88), Expect = 0.007
Identities = 30/105 (28%), Positives = 44/105 (41%), Gaps = 17/105 (16%)
Query: 248 LGRSGRGL-TEHCGV-PVDKIDIVTAAMGHALATEGGF----CTGSARVVDHQRLSSSGY 301
GR+G E GV P D+ T ++A GGF TG A V+D G
Sbjct: 245 AGRTGTLFAMEQMGVAP----DLTT--FAKSIA--GGFPLAGVTGRAEVMDAVAPGGLGG 296
Query: 302 VFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDI 346
++ + P AA+ + V E+ +L+ K L+ GL I
Sbjct: 297 TYAGN--PIACVAALEVLKVFEQ-ENLLQKANDLGQKLKDGLLAI 338
>2e7u_A Glutamate-1-semialdehyde 2,1-aminomutase; PLP enzyme, GSA,
structural genomics, NPPSFA; HET: PMP; 1.90A {Thermus
thermophilus}
Length = 424
Score = 37.1 bits (87), Expect = 0.010
Identities = 36/139 (25%), Positives = 53/139 (38%), Gaps = 35/139 (25%)
Query: 311 LASAA-ITAIDVLEENPDLITKLKKNTAILRTGLSDI---HGLSIASNPESPIVFLILEK 366
LA AA + +++LEENP L+ A L GL ++ GL N
Sbjct: 304 LAMAAGLATLELLEENPGYYAYLEDLGARLEAGLKEVLKEKGLPHTVN------------ 351
Query: 367 STGSMK----NDLQLLEDIADWALKEDGVFVVTSKRSMLDKCRLPVGIRL--------FV 414
GSM + + D A + D +LD+ GI F+
Sbjct: 352 RVGSMITVFFTE-GPVVTFQD-ARRTDTELFKRFFHGLLDR-----GIYWPPSNFEAAFL 404
Query: 415 SAAHSEADLVKACESLKRI 433
S AH E D+ K E+L++
Sbjct: 405 SVAHREEDVEKTLEALRKA 423
>2cy8_A D-phgat, D-phenylglycine aminotransferase; structural genomics,
NPPSFA, national PROJ protein structural and functional
analyses; 2.30A {Pseudomonas stutzeri}
Length = 453
Score = 36.4 bits (85), Expect = 0.015
Identities = 20/130 (15%), Positives = 45/130 (34%), Gaps = 19/130 (14%)
Query: 313 SAAITAIDVLEENPDLITKLKKNTAILRTGLSDI---HGLSIASNPESPIVFLILEKSTG 369
+AAI AID + E D+ K+ R ++ + GL+ + L+
Sbjct: 312 AAAIAAIDTILE-DDVCAKINDLGQFAREAMNHLFARKGLNWLAYGRFSGFHLMPGLPPN 370
Query: 370 SMKNDLQLLEDIADWALKEDGVFVVTSKRSMLDKCRLPVGIRL------FVSAAHSEADL 423
+ + + D + + +++ + G+ + F+SA H +
Sbjct: 371 TTDTGSITRAE----VARPDVKMIAAMRMALILE-----GVDIGGRGSVFLSAQHEREHV 421
Query: 424 VKACESLKRI 433
+ R+
Sbjct: 422 EHLVTTFDRV 431
>4ffc_A 4-aminobutyrate aminotransferase (GABT); structural genomics,
niaid, national institute of allergy AN infectious
diseases; HET: LLP; 1.80A {Mycobacterium abscessus}
Length = 453
Score = 36.4 bits (85), Expect = 0.015
Identities = 30/105 (28%), Positives = 47/105 (44%), Gaps = 17/105 (16%)
Query: 248 LGRSGRGL-TEHCGV-PVDKIDIVTAAMGHALATEGGF----CTGSARVVDHQRLSSSGY 301
R+G +EH G+ P DIVT M +A GG TG A ++D G
Sbjct: 271 FARTGAWFASEHEGIVP----DIVT--MAKGIA--GGMPLSAVTGRAELMDAVYAGGLGG 322
Query: 302 VFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDI 346
+ + P +AA+ A+ V+ E DL + + A + + LS +
Sbjct: 323 TYGGN--PVTCAAAVAALGVMREL-DLPARARAIEASVTSRLSAL 364
>3oks_A 4-aminobutyrate transaminase; ssgcid, transferase, seattle
structural genomics center for infectious disease; HET:
LLP; 1.80A {Mycobacterium smegmatis} PDB: 3r4t_A* 3q8n_A
Length = 451
Score = 36.4 bits (85), Expect = 0.017
Identities = 24/105 (22%), Positives = 45/105 (42%), Gaps = 17/105 (16%)
Query: 248 LGRSGRGL-TEHCGV-PVDKIDIVTAAMGHALATEGGF----CTGSARVVDHQRLSSSGY 301
R+G EH G+ P D++ +A GG TG A ++D +S G
Sbjct: 273 FARTGAMFACEHEGIDP----DLIV--TAKGIA--GGLPLSAVTGRAEIMDSPHVSGLGG 324
Query: 302 VFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDI 346
+ + P +AA+ I+ +E L+ + ++ I++ L +
Sbjct: 325 TYGGN--PIACAAALATIETIESE-GLVARAQQIEKIMKDRLGRL 366
>2e7j_A SEP-tRNA:Cys-tRNA synthase; seven-stranded BETE-strand, lyase,
structural genomics; HET: PLP; 2.40A {Archaeoglobus
fulgidus} SCOP: c.67.1.9 PDB: 2e7i_A*
Length = 371
Score = 35.5 bits (82), Expect = 0.029
Identities = 25/137 (18%), Positives = 43/137 (31%), Gaps = 24/137 (17%)
Query: 135 ALEKYGVG--SCGPRGFYG-----TIDVHLDCEARIAKFLGTPDSILYSYGLST-MFSAI 186
AL ++G G C T +H ++ KFLG D + G F+ +
Sbjct: 28 ALLEWGDGYSVCDFCTTGRLDEIKTPPIHDFIHNQLPKFLGC-DVARVTNGAREAKFAVM 86
Query: 187 PCFCKKGDLIVADEGVHWGIQNGLYLSRSTVVYFKHND-------MDSLRNTLERVTADN 239
KK +V DE H+ + + D ++ T+E
Sbjct: 87 HSLAKKDAWVVMDENCHYSSYVAAERAGLNIALVPKTDYPDYAITPENFAQTIEETKKRG 146
Query: 240 KR--------SNSFGVL 248
+ ++G L
Sbjct: 147 EVVLALITYPDGNYGNL 163
>4e77_A Glutamate-1-semialdehyde 2,1-aminomutase; structural genomics,
center for structural genomics of infec diseases, csgid,
porphyrin biosynthesis; 2.00A {Yersinia pestis}
Length = 429
Score = 34.4 bits (80), Expect = 0.061
Identities = 26/139 (18%), Positives = 44/139 (31%), Gaps = 35/139 (25%)
Query: 311 LASAA-ITAIDVLEENPDLITKLKKNTAILRTGLSDI---HGLSIASNPESPIVFLILEK 366
+A AA + + + + L + T L TGL + + N
Sbjct: 306 IAMAAGFACLTEISQ-VGVYETLTELTDSLATGLRHAAKEENIPLVVN------------ 352
Query: 367 STGSMK----NDLQLLEDIADWALKEDGVFVVTSKRSMLDKCRLPVGIRL--------FV 414
G M + + D + D ML++ G+ L F+
Sbjct: 353 HVGGMFGLFFTNADTVTCYQD-VMNCDVERFKRFFHLMLEE-----GVYLAPSAFEAGFM 406
Query: 415 SAAHSEADLVKACESLKRI 433
S AHS D+ K + +R
Sbjct: 407 SLAHSNEDIQKTVNAARRC 425
>3dxv_A Alpha-amino-epsilon-caprolactam racemase; fold-TYPE1,
pyridoxal-5'-phosphate dependent racemase, pyrid
phosphate, isomerase; HET: PLP; 2.21A {Achromobacter
obae} PDB: 2zuk_A* 3dxw_A*
Length = 439
Score = 32.9 bits (76), Expect = 0.18
Identities = 27/105 (25%), Positives = 46/105 (43%), Gaps = 18/105 (17%)
Query: 248 LGRSGRGL-TEHCGV-PVDKIDIVTAAMGHALATEGGF----CTGSARVVDHQRLSSSGY 301
L RSGR EH G P DI+ +G L GG A ++D + +
Sbjct: 247 LARSGRLHCFEHEGFVP----DILV--LGKGLG--GGLPLSAVIAPAEILDCAS-AFAMQ 297
Query: 302 VFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDI 346
+ P A+A + ++ ++ + DL ++ +LR GLS++
Sbjct: 298 TLHGN--PISAAAGLAVLETIDRD-DLPAMAERKGRLLRDGLSEL 339
>2epj_A Glutamate-1-semialdehyde 2,1-aminomutase; PLP enzyme, GSA,
structural genomics, NPPSFA; HET: PMP; 1.70A {Aeropyrum
pernix} PDB: 2zsl_A* 2zsm_A*
Length = 434
Score = 32.9 bits (76), Expect = 0.21
Identities = 29/140 (20%), Positives = 47/140 (33%), Gaps = 38/140 (27%)
Query: 311 LASAA-ITAIDVLEENPDLITKLKKNTAILRTGLSDI---HGLSIASNPESPIVFLILEK 366
+ AA + + LEE + + ++ L S++ GL N
Sbjct: 309 ITMAAGLATLKALEE-EPVYSVSREAAKALEEAASEVLDRTGLPYTIN------------ 355
Query: 367 STGSMKNDLQLL---EDIADW--ALKEDGVFVVTSKRSMLDKCRLPVGIRL--------F 413
SM +QL E++++ A K D F V ML + G+ + F
Sbjct: 356 RVESM---MQLFIGVEEVSNAAQARKADKKFYVKLHEEMLRR-----GVFIAPSNLEAVF 407
Query: 414 VSAAHSEADLVKACESLKRI 433
H L A E L+
Sbjct: 408 TGLPHQGEALEIAVEGLRSS 427
>3l44_A Glutamate-1-semialdehyde 2,1-aminomutase 1; alpha beta class,
PLP-dependent transferase-like, bacillus A csgid,
porphyrin biosynthesis; HET: LLP; 2.05A {Bacillus
anthracis}
Length = 434
Score = 32.9 bits (76), Expect = 0.21
Identities = 29/148 (19%), Positives = 54/148 (36%), Gaps = 38/148 (25%)
Query: 311 LASAA-ITAIDVLEENPDLITKLKKNTAILRTGLSDI---HGLSIASNPESPIVFLILEK 366
+ A+ I ++VL++ L KL + A L G+ + H + I N
Sbjct: 308 ASMASGIACLEVLQQ-EGLYEKLDELGATLEKGILEQAAKHNIDITLN------------ 354
Query: 367 STGSMKNDLQLL---EDIADW--ALKEDGVFVVTSKRSMLDKCRLPVGIRL--------F 413
L + I D+ A DG + ML + G+ L F
Sbjct: 355 RLKGA---LTVYFTTNTIEDYDAAQDTDGEMFGKFFKLMLQE-----GVNLAPSKYEAWF 406
Query: 414 VSAAHSEADLVKACESLKRISAVVLRDR 441
++ H++ D+ E++ R A + ++
Sbjct: 407 LTTEHTKEDIEYTIEAVGRAFAALADNK 434
>3asa_A LL-diaminopimelate aminotransferase; PLP dependent
aminotransferase; 2.05A {Chlamydia trachomatis} PDB:
3asb_A*
Length = 400
Score = 32.6 bits (75), Expect = 0.24
Identities = 21/129 (16%), Positives = 47/129 (36%), Gaps = 34/129 (26%)
Query: 314 AAITAIDVLEENPDLITKLKKNTAILRTGLSDIHGLSIASNPESPIVFL-ILEKSTGSMK 372
A + + + + I ++N+ +LR L G + +P +++ + +
Sbjct: 284 AGVAGLS-ILPQLEAIHYYRENSDLLRKALLAT-GFEVFGGEHAPYLWVKPTQANISD-- 339
Query: 373 NDLQLLEDIADWALKEDGVFVVTSKRSMLDKCRLP-VG--------IRLFVSAAHSEADL 423
D+ D+ L+E + + P +G +R S+ D+
Sbjct: 340 ------RDLFDFFLREYHIAIT------------PGIGFGRSGSGFVRF--SSLGKREDI 379
Query: 424 VKACESLKR 432
+ ACE L+
Sbjct: 380 LAACERLQM 388
>2yky_A Beta-transaminase; transferase; HET: PLP SFE; 1.69A {Mesorhizobium
SP} PDB: 2ykv_A* 2yku_A* 2ykx_A*
Length = 465
Score = 32.6 bits (75), Expect = 0.28
Identities = 20/147 (13%), Positives = 37/147 (25%), Gaps = 40/147 (27%)
Query: 311 LASAA-ITAIDVLEENPDLITKLKKNTAILRTGLSDI---HGLSIASNPESPIVFLILEK 366
L +A A+ + + L + R L+ I + +
Sbjct: 340 LTMSAGHAALTQIYT-RQAASDLSASGDRFRANLNRIAVENQAPLQFT------------ 386
Query: 367 STGSMKNDLQLL---EDIADW--ALKEDGVFVVTSKRSMLDKCRLPVGIRL--------F 413
GS+ + I D ML K GI L
Sbjct: 387 GLGSL---GTIHFSRAPIRSAGDVRAADQQLKELFFFHMLRK-----GIYLAPRGMYALS 438
Query: 414 VSAAHSEADLVKAC--ESLKRISAVVL 438
+ A + D + + A+++
Sbjct: 439 LEIADAGRDAFAEALADFIGEQRALLM 465
>1v72_A Aldolase; PLP-dependent enzyme, lyase; HET: PLP; 2.05A {Pseudomonas
putida} SCOP: c.67.1.1
Length = 356
Score = 31.8 bits (73), Expect = 0.37
Identities = 17/102 (16%), Positives = 32/102 (31%), Gaps = 21/102 (20%)
Query: 334 KNTAILRTGLSDIHGLSIASNPESPIVFLILEKSTGSMKNDLQLLEDIADWALKEDGVFV 393
L GL + G+ + E+ I+F L+ + D AL + G
Sbjct: 271 AAAQRLAQGLEGLGGVEVLGGTEANILFCRLD-------------SAMID-ALLKAGFGF 316
Query: 394 VTSKRSMLDKCRLPVGIRLFVSAAHSEADLVKACESLKRISA 435
+ P +R S A + D+ ++ +
Sbjct: 317 YHDRWG-------PNVVRFVTSFATTAEDVDHLLNQVRLAAD 351
>3fq8_A Glutamate-1-semialdehyde 2,1-aminomutase; drug resistance,
microev0lution, integrated approach, chlorophyll
biosynthesis; HET: PMP; 2.00A {Synechococcus elongatus
pcc 6301} PDB: 2hp1_A* 2hoz_A* 2hoy_A* 2hp2_A* 3fq7_A*
2gsa_A* 3gsb_A* 4gsa_A* 3fqa_A* 2cfb_A*
Length = 427
Score = 31.3 bits (72), Expect = 0.62
Identities = 30/139 (21%), Positives = 46/139 (33%), Gaps = 36/139 (25%)
Query: 311 LASAA-ITAIDVLEENPDLITKLKKNTAILRTGLSDI---HGLSIASNPESPIVFLILEK 366
LA A I +++L + P L + T L GL I G +
Sbjct: 305 LAMTAGIKTLELLRQ-PGTYEYLDQITKRLSDGLLAIAQETGHAACGG------------ 351
Query: 367 STGSMK----NDLQLLEDIADWALKEDGVFVVTSKRSMLDKCRLPVGIRL--------FV 414
M + + + D A K D R ML++ GI L F
Sbjct: 352 QVSGMFGFFFTE-GPVHNYED-AKKSDLQKFSRFHRGMLEQ-----GIYLAPSQFEAGFT 404
Query: 415 SAAHSEADLVKACESLKRI 433
S AH+E D+ + + +
Sbjct: 405 SLAHTEEDIDATLAAARTV 423
>1jg8_A L-ALLO-threonine aldolase; glycine biosynthesis, pyridoxal-5'-
phosphate, calcium binding site, structural genomics,
PSI; HET: LLP; 1.80A {Thermotoga maritima} SCOP:
c.67.1.1 PDB: 1lw4_A* 1lw5_A* 1m6s_A* 2fm1_A*
Length = 347
Score = 31.1 bits (71), Expect = 0.66
Identities = 23/127 (18%), Positives = 42/127 (33%), Gaps = 26/127 (20%)
Query: 310 YLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDIHGLSIASNPESPIVFLILEKSTG 369
LA+A I A L + D + + +N L L +I + ++ +V L +
Sbjct: 239 VLAAAGIIA---LTKMVDRLKEDHENARFLALKLKEIGYSVNPEDVKTNMVILRTDNLKV 295
Query: 370 SMKNDLQLLEDIADWALKEDGVFVVTSKRSMLDKCRLPVGIRLFVSAAH---SEADLVKA 426
+ + L+ GV IRL H S D+ +A
Sbjct: 296 NA-------HGFIEA-LRNSGVLANAVS---------DTEIRL---VTHKDVSRNDIEEA 335
Query: 427 CESLKRI 433
+++
Sbjct: 336 LNIFEKL 342
>1zod_A DGD, 2,2-dialkylglycine decarboxylase; pyridoxal, cesium, lyase;
HET: MES PLP; 1.80A {Burkholderia cepacia} SCOP:
c.67.1.4 PDB: 1dka_A* 1m0o_A* 1m0p_A* 1m0n_A* 1zc9_A*
1zob_A* 1m0q_A* 2dkb_A* 1dgd_A* 1dge_A* 1d7u_A* 1d7s_A*
1d7r_A* 1d7v_A* 1z3z_A*
Length = 433
Score = 31.0 bits (71), Expect = 0.71
Identities = 24/107 (22%), Positives = 42/107 (39%), Gaps = 19/107 (17%)
Query: 248 LGRSGRGL-TEHCGV-PVDKIDIVTAAMGHALATEGGF----CTGSARVVD--HQRLSSS 299
+GR+G + GV P DI+T + L G SA + + H+
Sbjct: 249 VGRTGTMFACQRDGVTP----DILT--LSKTLG--AGLPLAAIVTSAAIEERAHELGYLF 300
Query: 300 GYVFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDI 346
+ P A+ + +DV++ + L+ + LR GL D+
Sbjct: 301 YTTHVSD--PLPAAVGLRVLDVVQRD-GLVARANVMGDRLRRGLLDL 344
>3n75_A LDC, lysine decarboxylase, inducible; pyridoxal-5'-phosphate
dependent decarboxylase, acid stress stringent response;
HET: LLP G4P P6G; 2.00A {Escherichia coli} PDB: 3q16_A*
Length = 715
Score = 31.2 bits (70), Expect = 0.74
Identities = 14/72 (19%), Positives = 25/72 (34%), Gaps = 7/72 (9%)
Query: 154 DVHLDCEARIAKFLGTPDSILY----SYGLSTMFSAIPCFCKKGDLIVADEGVHWGIQNG 209
H + E IA+ S + S + G I+ D H + +
Sbjct: 195 GPHKEAEQYIARVFNADRSYMVTNGTSTANKIVGMY---SAPAGSTILIDRNCHKSLTHL 251
Query: 210 LYLSRSTVVYFK 221
+ +S T +YF+
Sbjct: 252 MMMSDVTPIYFR 263
>2oat_A Ornithine aminotransferase; 5-fluoromethylornithine, PLP-dependent
ENZ pyridoxal phosphate; HET: PFM; 1.95A {Homo sapiens}
SCOP: c.67.1.4 PDB: 1oat_A* 2byj_A* 2byl_A* 1gbn_A*
2can_A*
Length = 439
Score = 31.1 bits (71), Expect = 0.78
Identities = 32/107 (29%), Positives = 46/107 (42%), Gaps = 16/107 (14%)
Query: 248 LGRSGRGL-TEHCGVPVDKIDIVTAAMGHALATEGGFCTGSARVVDHQRLS-----SSGY 301
L R+GR L ++ V + DIV +G AL+ GG SA + D + G
Sbjct: 269 LARTGRWLAVDYENV---RPDIVL--LGKALS--GGLYPVSAVLCDDDIMLTIKPGEHGS 321
Query: 302 VFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDIHG 348
+ + P AI A++VLEE +L K ILR L +
Sbjct: 322 TYGGN--PLGCRVAIAALEVLEE-ENLAENADKLGIILRNELMKLPS 365
>2vyc_A Biodegradative arginine decarboxylase; pyridoxal phosphate,
PLP-dependent E lyase, acid resistance; HET: LLP; 2.4A
{Escherichia coli}
Length = 755
Score = 30.8 bits (69), Expect = 0.89
Identities = 16/69 (23%), Positives = 25/69 (36%), Gaps = 1/69 (1%)
Query: 154 DVHLDCEARIAKFLGTPDSILYSYGLST-MFSAIPCFCKKGDLIVADEGVHWGIQNGLYL 212
+ E A+ G S G S + + D++V D H I+ GL L
Sbjct: 205 GAFGESEKYAARVFGADRSWSVVVGTSGSNRTIMQACMTDNDVVVVDRNCHKSIEQGLML 264
Query: 213 SRSTVVYFK 221
+ + VY
Sbjct: 265 TGAKPVYMV 273
>1z7d_A Ornithine aminotransferase; structural genomics consortium, SGC,
malaria; 2.10A {Plasmodium yoelii yoelii} SCOP: c.67.1.4
PDB: 3lg0_A 3ntj_A
Length = 433
Score = 30.7 bits (70), Expect = 1.00
Identities = 24/105 (22%), Positives = 40/105 (38%), Gaps = 16/105 (15%)
Query: 248 LGRSGRGL-TEHCGVPVDKIDIVTAAMGHALATEGGF-----CTGSARVVDHQRLSSSGY 301
LGR+G+ L H V K D++ +G AL+ GG + ++ + G
Sbjct: 258 LGRTGKLLCVHHYNV---KPDVIL--LGKALS--GGHYPISAVLANDDIMLVIKPGEHGS 310
Query: 302 VFSASLPPYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDI 346
+ + P AS + A++VL L +K L
Sbjct: 311 TYGGN--PLAASICVEALNVLIN-EKLCENAEKLGGPFLENLKRE 352
>3op7_A Aminotransferase class I and II; PLP-dependent transferase,
structural genomics, joint center structural genomics,
JCSG; HET: LLP UNL; 1.70A {Streptococcus suis 89} PDB:
3p6k_A*
Length = 375
Score = 30.6 bits (70), Expect = 1.1
Identities = 34/170 (20%), Positives = 58/170 (34%), Gaps = 35/170 (20%)
Query: 282 GFCTGSARVVD-----HQRLSSSGYVFSASLPPYLASAAITAID-VLEENPDLITKLKKN 335
G+ + +V D VF +A A+ +LE N ++ ++N
Sbjct: 232 GWVAANHQVTDILRDYRDYTMICAGVFDD----LVAQLALAHYQEILERNRHIL---EEN 284
Query: 336 TAILRTGLSDIHGLSIASNPE-SPIVFLILEKSTGSMKNDLQLLEDIADWALKEDGVFVV 394
AIL + + +S P F+ + ED L+E GV +V
Sbjct: 285 LAILDQWIEEEPLVSYI-RPAVVSTSFVKIAVDMPM--------EDFCLQLLQEHGVLLV 335
Query: 395 TSKRSMLDKCRLPVGIRLFVSAAHSEADLVKACESLKRISAVV--LRDRN 442
R D +RL A + L+K L+++S + N
Sbjct: 336 PGNRFERDGY-----VRL--GFACEQETLIKG---LEKLSQFLRRFDKEN 375
>3k28_A Glutamate-1-semialdehyde 2,1-aminomutase 2; biosynthesis of
cofactors, prosthetic groups, and carriers, csgid,
cytoplasm, isomerase; HET: MSE PLP; 1.95A {Bacillus
anthracis str} PDB: 3bs8_A*
Length = 429
Score = 30.5 bits (70), Expect = 1.3
Identities = 30/145 (20%), Positives = 52/145 (35%), Gaps = 41/145 (28%)
Query: 311 LASAA-ITAIDVLEENPDLITKLKKNTAILRTGLSDI---HGLSIASNPESPIVFLILEK 366
LA AA + L P+ + ++ +L GL HG+ N
Sbjct: 306 LAMAAGYETLVQL--TPESYVEFERKAEMLEAGLRKAAEKHGIPHHIN------------ 351
Query: 367 STGSMK----NDLQLLEDIADWALKEDGVFVVTSKRSMLDKCRLPVGIRL--------FV 414
GSM D + + + A + F R M+++ G+ L F+
Sbjct: 352 RAGSMIGIFFTD-EPVINYDA-AKSSNLQFFAAYYREMVEQ-----GVFLPPSQFEGLFL 404
Query: 415 SAAHSEADLVK----ACESLKRISA 435
S HS+AD+ A ++ ++ A
Sbjct: 405 STVHSDADIEATIAAAEIAMSKLKA 429
>2x3l_A ORN/Lys/Arg decarboxylase family protein; lyase; HET: LLP; 2.00A
{Staphylococcus aureus}
Length = 446
Score = 30.6 bits (69), Expect = 1.3
Identities = 11/63 (17%), Positives = 24/63 (38%), Gaps = 4/63 (6%)
Query: 176 SYGLSTMFSAIPCFCKKGDLIVADEGVHWGIQNGLYLSRSTVVYFKHNDMDSLRNTLERV 235
+ G+ ++ + F +K I+ VH + + L +S+ + L N +V
Sbjct: 82 TSGILSVIQS---FSQKKGDILMARNVHKSVLHALDISQQEGHFI-ETHQSPLTNHYNKV 137
Query: 236 TAD 238
Sbjct: 138 NLS 140
>3ruy_A Ornithine aminotransferase; structural genomics, csgid, center for
structural genomics O infectious diseases, alpha and
beta protein; HET: LLP; 2.65A {Bacillus anthracis}
Length = 392
Score = 29.8 bits (68), Expect = 1.9
Identities = 27/112 (24%), Positives = 40/112 (35%), Gaps = 26/112 (23%)
Query: 248 LGRSGRGL-TEHCGVPVDKIDIVTAAMGHALATEGGFCTGSARVVDHQRLSSSGYVFSAS 306
LGR+G+ + V D+ +G AL GG S + L VF
Sbjct: 228 LGRTGKVFACDWDNV---TPDMYI--LGKALG--GGVFPISCAAANRDILG----VFE-- 274
Query: 307 LP----------PYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDIHG 348
P P + +I A++VLEE L + + L L +I
Sbjct: 275 -PGSHGSTFGGNPLACAVSIAALEVLEE-EKLTERSLQLGEKLVGQLKEIDN 324
>3ndn_A O-succinylhomoserine sulfhydrylase; seattle structural genomics
center for infectious disease, S mycobacterium, PLP,
schiff base; HET: LLP; 1.85A {Mycobacterium
tuberculosis}
Length = 414
Score = 29.5 bits (67), Expect = 2.3
Identities = 14/83 (16%), Positives = 29/83 (34%), Gaps = 22/83 (26%)
Query: 160 EARIAKFLGTPDSILYSYGLSTMFSAIPCFCKKGDLIVADEGV-------------HWGI 206
E R+ G P + + G++ +F+++ GD +VA + WG+
Sbjct: 87 EERLRLIEGAPAAFATASGMAAVFTSLGALLGAGDRLVAARSLFGSCFVVCSEILPRWGV 146
Query: 207 QNGLYLSRSTVVYFKHNDMDSLR 229
V+ +D+
Sbjct: 147 ---------QTVFVDGDDLSQWE 160
>2jjn_A Cytochrome P450 113A1; oxidoreductase, iron, heme, monooxygenase,
metal-binding, AN biosynthesis, TIE-ROD mechanism of
action; HET: HEM; 1.59A {Saccharopolyspora erythraea}
PDB: 2jjo_A* 2jjp_A* 2xfh_A* 2wio_A* 2vrv_A*
Length = 411
Score = 28.8 bits (65), Expect = 4.3
Identities = 15/50 (30%), Positives = 19/50 (38%), Gaps = 12/50 (24%)
Query: 80 SLIPPIIEEM-RCEPPVLESA---------AGPHTIISGKEV-VNFASAN 118
IP I+EE+ R PP + AG I + V SAN
Sbjct: 272 GRIPAIVEEVLRYRPPFPQMQRTTTKATEVAG-VPIPADVMVNTWVLSAN 320
>3aqb_A Component A of hexaprenyl diphosphate synthase; prenyltransferase,
transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_A*
Length = 147
Score = 27.8 bits (61), Expect = 4.4
Identities = 17/75 (22%), Positives = 25/75 (33%)
Query: 309 PYLASAAITAIDVLEENPDLITKLKKNTAILRTGLSDIHGLSIASNPESPIVFLILEKST 368
AI AID D I + K++ +L T + S P FL+L
Sbjct: 44 DENVKCAIVAIDTSMRMQDFINEDNKDSFVLSTDVLSALFYKYLSQPFYQHDFLVLTDCV 103
Query: 369 GSMKNDLQLLEDIAD 383
+ + I D
Sbjct: 104 SRINELKSIRATITD 118
>2uuq_A CYP130, cytochrome P450 130; iron, heme, monooxygenase,
metal-binding, oxidoreductase, hypothetical protein;
HET: HEM; 1.46A {Mycobacterium tuberculosis} PDB:
2uvn_A* 2whf_A* 2wh8_A* 2wgy_A*
Length = 414
Score = 28.4 bits (64), Expect = 4.5
Identities = 15/50 (30%), Positives = 21/50 (42%), Gaps = 12/50 (24%)
Query: 80 SLIPPIIEEM-RCEPPVLESA---------AGPHTIISGKEV-VNFASAN 118
IP +EE+ R PV A TI +G+ V + + SAN
Sbjct: 281 EGIPDAVEELLRLTSPVQGLARTTTRDVTIGD-TTIPAGRRVLLLYGSAN 329
>3nc3_A Cytochrome P450 CYPX; cytochrome P450 oxidase, HAEM protein,
oxidoreductase; HET: HEM; 2.66A {Bacillus subtilis} PDB:
3nc5_A* 3nc6_A* 3nc7_A*
Length = 441
Score = 28.1 bits (63), Expect = 7.2
Identities = 14/50 (28%), Positives = 17/50 (34%), Gaps = 12/50 (24%)
Query: 80 SLIPPIIEEM-RCEPPVLESA---------AGPHTIISGKEV-VNFASAN 118
SL+P I E R +PPV G I V +AN
Sbjct: 300 SLVPRAIAETLRYKPPVQLIPRQLSQDTVVGG-MEIKKDTIVFCMIGAAN 348
>3c8z_A Cysteinyl-tRNA synthetase; cysteine ligase, rossmann fold, Cys-SA
inhibitor, zinc binding, ATP-binding, aminoacyl-tRNA
synthetase; HET: 5CA 1PE EPE; 1.60A {Mycobacterium
smegmatis}
Length = 414
Score = 27.6 bits (62), Expect = 9.0
Identities = 10/43 (23%), Positives = 15/43 (34%), Gaps = 7/43 (16%)
Query: 398 RSMLDKCRLPVGIRLFVSAAH-------SEADLVKACESLKRI 433
+ + P IRL + + H S L +A L R
Sbjct: 303 SQLRAQGVDPSAIRLGLFSGHYREDRFWSNEVLDEANARLARW 345
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 0.402
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,841,858
Number of extensions: 429273
Number of successful extensions: 1055
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1033
Number of HSP's successfully gapped: 66
Length of query: 442
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 345
Effective length of database: 3,993,456
Effective search space: 1377742320
Effective search space used: 1377742320
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 (26.4 bits)