RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 010058
(519 letters)
>1rv3_A Serine hydroxymethyltransferase, cytosolic; one-carbon metabolism;
HET: GLY PLP; 2.40A {Oryctolagus cuniculus} SCOP:
c.67.1.4 PDB: 1rv4_A* 1rvu_A* 1rvy_A* 1ls3_A* 1cj0_A*
1bj4_A* 1eji_A*
Length = 483
Score = 833 bits (2155), Expect = 0.0
Identities = 273/468 (58%), Positives = 347/468 (74%), Gaps = 2/468 (0%)
Query: 46 PAPWINQLNAPLEEIDPEIADIIELEKARQWKGLELIPSENFTSVSVMQAVGSVMTNKYS 105
+ L PL++ D E+ DII+ E RQ GLELI SENF S +V++A+GS + NKYS
Sbjct: 14 WSSHEQMLAQPLKDSDAEVYDIIKKESNRQRVGLELIASENFASRAVLEALGSCLNNKYS 73
Query: 106 EGYPGARYYGGNEYIDMAESLCQKRALDAFQLDPAKWGVNVQSLSGSPANFQVYTALLKP 165
GYPG RYYGG E+ID E+LCQKRAL A+ LDP WGVNVQ SGSPANF VYTAL++P
Sbjct: 74 LGYPGQRYYGGTEHIDELETLCQKRALQAYGLDPQCWGVNVQPYSGSPANFAVYTALVEP 133
Query: 166 HERIMALDLPHGGHLSHGYQTDTKKISAVSIFFETMPYRLDESTGYIDYEQLEKSAALFR 225
H RIM LDLP GGHL+HG+ TD KKISA SIFFE+M Y+++ TGYIDY++LE++A LF
Sbjct: 134 HGRIMGLDLPDGGHLTHGFMTDKKKISATSIFFESMAYKVNPDTGYIDYDRLEENARLFH 193
Query: 226 PKLIVAGASAYARLYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPFEYADVVTTT 285
PKLI+AG S Y+R DY R+RK+ D+ A ++ADMAHISGLV AGV+PSPFE+ VVTTT
Sbjct: 194 PKLIIAGTSCYSRNLDYGRLRKIADENGAYLMADMAHISGLVVAGVVPSPFEHCHVVTTT 253
Query: 286 THKSLRGPRGAMIFFRKGVKEIN-KQGQEVMYAYEDKINQAVFPGLQGGPHNHTISGLAV 344
THK+LRG R MIF+R+GV+ ++ K G+E++Y E IN AVFPGLQGGPHNH I+G+AV
Sbjct: 254 THKTLRGCRAGMIFYRRGVRSVDPKTGKEILYNLESLINSAVFPGLQGGPHNHAIAGVAV 313
Query: 345 ALKQVKTPEYKAYQEQVLSNSSKFARSLLERGYDLVSGGTENHLVLVNLRNKGIDGSRVE 404
ALKQ TPE+K YQ QV++N + +L+E GY +V+GG++NHL+LV+LR+KG DG R E
Sbjct: 314 ALKQAMTPEFKEYQRQVVANCRALSAALVELGYKIVTGGSDNHLILVDLRSKGTDGGRAE 373
Query: 405 KVLESVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFEKVAEFFDAAVKLALK 464
KVLE+ IA NKNT PGD SA+ P G+R+GTPALTSRG +E+DF+KVA F ++L ++
Sbjct: 374 KVLEACSIACNKNTCPGDKSALRPSGLRLGTPALTSRGLLEKDFQKVAHFIHRGIELTVQ 433
Query: 465 IKGDT-KGTKLKDFVATLMSDESIQSEISNLRDKVEEYAKRFPTVGFE 511
I+ DT LK+F L DE Q + LR +VE +A FP G
Sbjct: 434 IQDDTGPRATLKEFKEKLAGDEKHQRAVRALRQEVESFAALFPLPGLP 481
>2a7v_A Serine hydroxymethyltransferase; structural genomics, structural
genomics consortium, SGC; 2.04A {Homo sapiens} SCOP:
c.67.1.4 PDB: 3ou5_A
Length = 490
Score = 832 bits (2151), Expect = 0.0
Identities = 286/489 (58%), Positives = 364/489 (74%), Gaps = 3/489 (0%)
Query: 25 GSHYYVYMSSLPDQALNNEKAPAPWINQLNAPLEEIDPEIADIIELEKARQWKGLELIPS 84
G + + + A + A L + DPE+ ++++ EK RQ +GLELI S
Sbjct: 3 GQLVRMAIRAQHSNAAQTQTGEANRGWTGQESLSDSDPEMWELLQREKDRQCRGLELIAS 62
Query: 85 ENFTSVSVMQAVGSVMTNKYSEGYPGARYYGGNEYIDMAESLCQKRALDAFQLDPAKWGV 144
ENF S + ++A+GS + NKYSEGYPG RYYGG E +D E LCQ+RAL+AF LDPA+WGV
Sbjct: 63 ENFCSRAALEALGSCLNNKYSEGYPGKRYYGGAEVVDEIELLCQRRALEAFDLDPAQWGV 122
Query: 145 NVQSLSGSPANFQVYTALLKPHERIMALDLPHGGHLSHGYQTDTKKISAVSIFFETMPYR 204
NVQ SGSPAN VYTALL+PH+RIM LDLP GGHL+HGY +D K+ISA SIFFE+MPY+
Sbjct: 123 NVQPYSGSPANLAVYTALLQPHDRIMGLDLPDGGHLTHGYMSDVKRISATSIFFESMPYK 182
Query: 205 LDESTGYIDYEQLEKSAALFRPKLIVAGASAYARLYDYARIRKVCDKQKAVMLADMAHIS 264
L+ TG IDY QL +A LFRP+LI+AG SAYARL DYAR+R+VCD+ KA +LADMAHIS
Sbjct: 183 LNPKTGLIDYNQLALTARLFRPRLIIAGTSAYARLIDYARMREVCDEVKAHLLADMAHIS 242
Query: 265 GLVAAGVIPSPFEYADVVTTTTHKSLRGPRGAMIFFRKGVKEIN-KQGQEVMYAYEDKIN 323
GLVAA VIPSPF++AD+VTTTTHK+LRG R +IF+RKGVK ++ K G+E+ Y +ED+IN
Sbjct: 243 GLVAAKVIPSPFKHADIVTTTTHKTLRGARSGLIFYRKGVKAVDPKTGREIPYTFEDRIN 302
Query: 324 QAVFPGLQGGPHNHTISGLAVALKQVKTPEYKAYQEQVLSNSSKFARSLLERGYDLVSGG 383
AVFP LQGGPHNH I+ +AVALKQ TP ++ Y QVL N+ A +LLERGY LVSGG
Sbjct: 303 FAVFPSLQGGPHNHAIAAVAVALKQACTPMFREYSLQVLKNARAMADALLERGYSLVSGG 362
Query: 384 TENHLVLVNLRNKGIDGSRVEKVLESVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGF 443
T+NHLVLV+LR KG+DG+R E+VLE V I ANKNT PGD SA+ PGG+R+G PALTSR F
Sbjct: 363 TDNHLVLVDLRPKGLDGARAERVLELVSITANKNTCPGDRSAITPGGLRLGAPALTSRQF 422
Query: 444 VEEDFEKVAEFFDAAVKLALKIKGDTKGTKLKDFVATLMSDESIQSEISNLRDKVEEYAK 503
E+DF +V +F D V + L++K T KL+DF + L+ D ++NLR +VE++A+
Sbjct: 423 REDDFRRVVDFIDEGVNIGLEVKSKT--AKLQDFKSFLLKDSETSQRLANLRQRVEQFAR 480
Query: 504 RFPTVGFEK 512
FP GF++
Sbjct: 481 AFPMPGFDE 489
>3gbx_A Serine hydroxymethyltransferase; structural genomics, IDP01011,
serine hydroxymethyltransfera salmonella typhimurium.;
HET: MSE; 1.80A {Salmonella typhimurium} PDB: 1dfo_A*
3g8m_A* 1eqb_A*
Length = 420
Score = 537 bits (1386), Expect = 0.0
Identities = 193/457 (42%), Positives = 271/457 (59%), Gaps = 51/457 (11%)
Query: 54 NAPLEEIDPEIADIIELEKARQWKGLELIPSENFTSVSVMQAVGSVMTNKYSEGYPGARY 113
+ + D E+ +E EK RQ + +ELI SEN+TS VMQA GS +TNKY+EGYPG RY
Sbjct: 8 EMNIADYDAELWQAMEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRY 67
Query: 114 YGGNEYIDMAESLCQKRALDAFQLDPAKWGVNVQSLSGSPANFQVYTALLKPHERIMALD 173
YGG EY+D+ E L RA + F A + NVQ SGS ANF VYTALL+P + ++ ++
Sbjct: 68 YGGCEYVDVVEQLAIDRAKELFG---ADY-ANVQPHSGSQANFAVYTALLQPGDTVLGMN 123
Query: 174 LPHGGHLSHGYQTDTKKISAVSI---FFETMPYRLDESTGYIDYEQLEKSAALFRPKLIV 230
L GGHL+HG S V+ + +PY +DE +G IDY+++ K A +PK+I+
Sbjct: 124 LAQGGHLTHG--------SPVNFSGKLYNIVPYGIDE-SGKIDYDEMAKLAKEHKPKMII 174
Query: 231 AGASAYARLYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPFEYADVVTTTTHKSL 290
G SAY+ + D+A++R++ D A + DMAH++GL+AAGV P+P +A VVTTTTHK+L
Sbjct: 175 GGFSAYSGVVDWAKMREIADSIGAYLFVDMAHVAGLIAAGVYPNPVPHAHVVTTTTHKTL 234
Query: 291 RGPRGAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGLQGGPHNHTISGLAVALKQVK 350
GPRG +I + G +E+ K K+N AVFP QGGP H I+G AVALK+
Sbjct: 235 AGPRGGLILAKGGDEELYK-----------KLNSAVFPSAQGGPLMHVIAGKAVALKEAM 283
Query: 351 TPEYKAYQEQVLSNSSKFARSLLERGYDLVSGGTENHLVLVNLRNKGIDGSRVEKVLESV 410
PE+K YQ+QV N+ L RGY +VSGGTENHL L++L +K + G + L
Sbjct: 284 EPEFKVYQQQVAKNAKAMVEVFLNRGYKVVSGGTENHLFLLDLVDKNLTGKEADAALGRA 343
Query: 411 HIAANKNTVPGD-VSAMVPGGIRMGTPALTSRGFVEEDFEKVAEFFDAAVKLALKIKGDT 469
+I NKN+VP D S V GIR+G+PA+T RGF E + +++A + +
Sbjct: 344 NITVNKNSVPNDPKSPFVTSGIRIGSPAVTRRGFKEAEVKELAGWMCDVLD--------- 394
Query: 470 KGTKLKDFVATLMSDESIQSEISNLRDKVEEYAKRFP 506
++DE+ + + KV + RFP
Sbjct: 395 -----------NINDEATIERV---KAKVLDICARFP 417
>3ecd_A Serine hydroxymethyltransferase 2; ssgcid, decode, bupsa00008A,
one-carbon metabolism, pyridoxa phosphate, structural
genomics; 1.60A {Burkholderia pseudomallei}
Length = 425
Score = 537 bits (1385), Expect = 0.0
Identities = 182/458 (39%), Positives = 250/458 (54%), Gaps = 47/458 (10%)
Query: 53 LNAPLEEIDPEIADIIELEKARQWKGLELIPSENFTSVSVMQAVGSVMTNKYSEGYPGAR 112
+ L E D + I E RQ +ELI SEN S +V+ A GSV+TNKY+EGYPG R
Sbjct: 9 FSQSLAERDASVRGAILKELERQQSQVELIASENIVSRAVLDAQGSVLTNKYAEGYPGKR 68
Query: 113 YYGGNEYIDMAESLCQKRALDAFQLDPAKWGVNVQSLSGSPANFQVYTALLKPHERIMAL 172
YYGG E+ D E+L +R F A NVQ SG+ AN V AL KP + ++ +
Sbjct: 69 YYGGCEFADEVEALAIERVKRLFN---AGH-ANVQPHSGAQANGAVMLALAKPGDTVLGM 124
Query: 173 DLPHGGHLSHGYQTDTKKISAVSI---FFETMPYRLDESTGYIDYEQLEKSAALFRPKLI 229
L GGHL+HG + ++ +F + Y + T IDY+Q+E A +P LI
Sbjct: 125 SLDAGGHLTHG--------AKPALSGKWFNALQYGVSRDTMLIDYDQVEALAQQHKPSLI 176
Query: 230 VAGASAYARLYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPFEYADVVTTTTHKS 289
+AG SAY R D+AR R + D A ++ DMAHI+G++AAG +P E+A VVT+TTHK+
Sbjct: 177 IAGFSAYPRKLDFARFRAIADSVGAKLMVDMAHIAGVIAAGRHANPVEHAHVVTSTTHKT 236
Query: 290 LRGPRGAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGLQGGPHNHTISGLAVALKQV 349
LRGPRG + +EI K KIN AVFPGLQGGP H I+G AVA +
Sbjct: 237 LRGPRGGFVLTND--EEIAK-----------KINSAVFPGLQGGPLMHVIAGKAVAFGEA 283
Query: 350 KTPEYKAYQEQVLSNSSKFARSLLERGYDLVSGGTENHLVLVNLRNKGIDGSRVEKVLES 409
T ++K Y ++VL+N+ L G DLV+GGT+NHL+LV+LR KG+ G++VE+ LE
Sbjct: 284 LTDDFKTYIDRVLANAQALGDVLKAGGVDLVTGGTDNHLLLVDLRPKGLKGAQVEQALER 343
Query: 410 VHIAANKNTVPGD-VSAMVPGGIRMGTPALTSRGFVEEDFEKVAEFFDAAVKLALKIKGD 468
I NKN +P D + GIR+GTPA T+RGF +F +V
Sbjct: 344 AGITCNKNGIPFDPEKPTITSGIRLGTPAGTTRGFGAAEFREVGRLILEV---------- 393
Query: 469 TKGTKLKDFVATLMSDESIQSEISNLRDKVEEYAKRFP 506
+ D + + + R ++ +RFP
Sbjct: 394 -----FEALRTNPEGDHATEQRV---RREIFALCERFP 423
>2vi8_A Serine hydroxymethyltransferase; SHMT, E53Q, FTHF, enzyme memory,
pyridoxal phosphate, one-carbon metabolism,
PLP-dependent enzymes; HET: PLP; 1.67A {Bacillus
stearothermophilus} PDB: 2vi9_A* 2via_A* 2vib_A* 1kkj_A*
1kkp_A* 1kl1_A* 1kl2_A* 1yjs_A* 2w7f_A* 2w7d_A* 2w7e_A*
2w7g_A* 2w7h_A* 1yjz_A* 1yjy_A* 2vgu_A* 2vgs_A* 2vgt_A*
2vgv_A* 2vgw_A* ...
Length = 405
Score = 532 bits (1372), Expect = 0.0
Identities = 185/429 (43%), Positives = 266/429 (62%), Gaps = 33/429 (7%)
Query: 57 LEEIDPEIADIIELEKARQWKGLELIPSENFTSVSVMQAVGSVMTNKYSEGYPGARYYGG 116
L + DP++ IE E+ RQ +ELI SENF S +VM+A GSV+TNKY+EGYPG RYYGG
Sbjct: 4 LPQQDPQVFAAIEQERKRQHAKIELIASENFVSRAVMEAQGSVLTNKYAEGYPGRRYYGG 63
Query: 117 NEYIDMAESLCQKRALDAFQLDPAKWGVNVQSLSGSPANFQVYTALLKPHERIMALDLPH 176
EY+D+ E L ++RA F A+ NVQ SG+ AN VY +L+ + ++ ++L H
Sbjct: 64 CEYVDIVEELARERAKQLFG---AEH-ANVQPHSGAQANMAVYFTVLEHGDTVLGMNLSH 119
Query: 177 GGHLSHGYQTDTKKISAVSI---FFETMPYRLDESTGYIDYEQLEKSAALFRPKLIVAGA 233
GGHL+HG S V+ + + Y +D T IDY+ + + A L RPKLIVA A
Sbjct: 120 GGHLTHG--------SPVNFSGVQYNFVAYGVDPETHVIDYDDVREKARLHRPKLIVAAA 171
Query: 234 SAYARLYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPFEYADVVTTTTHKSLRGP 293
+AY R+ D+A+ R++ D+ A ++ DMAHI+GLVAAG+ P+P YA VTTTTHK+LRGP
Sbjct: 172 AAYPRIIDFAKFREIADEVGAYLMVDMAHIAGLVAAGLHPNPVPYAHFVTTTTHKTLRGP 231
Query: 294 RGAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGLQGGPHNHTISGLAVALKQVKTPE 353
RG MI ++ + +I++A+FPG+QGGP H I+ AVA + +
Sbjct: 232 RGGMILCQE--------------QFAKQIDKAIFPGIQGGPLMHVIAAKAVAFGEALQDD 277
Query: 354 YKAYQEQVLSNSSKFARSLLERGYDLVSGGTENHLVLVNLRNKGIDGSRVEKVLESVHIA 413
+KAY ++V+ N+ + A +L G+ LVSGGT+NHL+LV+LR + + G EKVL+ V I
Sbjct: 278 FKAYAKRVVDNAKRLASALQNEGFTLVSGGTDNHLLLVDLRPQQLTGKTAEKVLDEVGIT 337
Query: 414 ANKNTVPGD-VSAMVPGGIRMGTPALTSRGFVEEDFEKVAEFFDAAVKLALKIKGDTKGT 472
NKNT+P D S V GIR+GT A+T+RGF E+ +++A +K + +
Sbjct: 338 VNKNTIPYDPESPFVTSGIRIGTAAVTTRGFGLEEMDEIAAIIGLVLK---NVGSEQALE 394
Query: 473 KLKDFVATL 481
+ + VA L
Sbjct: 395 EARQRVAAL 403
>2dkj_A Serine hydroxymethyltransferase; PLP dependent enzyme, structural
genomics; HET: PLP; 1.15A {Thermus thermophilus}
Length = 407
Score = 530 bits (1368), Expect = 0.0
Identities = 193/454 (42%), Positives = 260/454 (57%), Gaps = 56/454 (12%)
Query: 57 LEEIDPEIADIIELEKARQWKGLELIPSENFTSVSVMQAVGSVMTNKYSEGYPGARYYGG 116
+ D + ++I LE+ RQ +GLELI SENF S V +AVGSV+TNKY+EGYPGARYYGG
Sbjct: 4 TLKRDEALFELIALEEKRQREGLELIASENFVSKQVREAVGSVLTNKYAEGYPGARYYGG 63
Query: 117 NEYIDMAESLCQKRALDAFQLDPAKWGVNVQSLSGSPANFQVYTALLKPHERIMALDLPH 176
E ID ESL +RA F A W NVQ SGS AN VY AL++P + +M +DL
Sbjct: 64 CEVIDRVESLAIERAKALFG---AAW-ANVQPHSGSQANMAVYMALMEPGDTLMGMDLAA 119
Query: 177 GGHLSHGYQTDTKKISAVSI---FFETMPYRLDESTGYIDYEQLEKSAALFRPKLIVAGA 233
GGHL+HG S V+ ++ + Y + T ID E++ + A RPK+IVAGA
Sbjct: 120 GGHLTHG--------SRVNFSGKLYKVVSYGVRPDTELIDLEEVRRLALEHRPKVIVAGA 171
Query: 234 SAYARLYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPFEYADVVTTTTHKSLRGP 293
SAY R +D+ R++ D+ A ++ DMAH +GLVAAG+ P+P YA VVT+TTHK+LRGP
Sbjct: 172 SAYPRFWDFKAFREIADEVGAYLVVDMAHFAGLVAAGLHPNPLPYAHVVTSTTHKTLRGP 231
Query: 294 RGAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGLQGGPHNHTISGLAVALKQVKTPE 353
RG +I +I++ +FPG+QGGP H I+G AVA + PE
Sbjct: 232 RGGLILSNDP-------------ELGKRIDKLIFPGIQGGPLEHVIAGKAVAFFEALQPE 278
Query: 354 YKAYQEQVLSNSSKFARSLLERGYDLVSGGTENHLVLVNLRNKGIDGSRVEKVLESVHIA 413
+K Y V+ N+ + A L RGY +V+GGT+NHL LV+LR KG+ G E+ L++V I
Sbjct: 279 FKEYSRLVVENAKRLAEELARRGYRIVTGGTDNHLFLVDLRPKGLTGKEAEERLDAVGIT 338
Query: 414 ANKNTVPGD-VSAMVPGGIRMGTPALTSRGFVEEDFEKVAEFFDAAVKLALKIKGDTKGT 472
NKN +P D V GIR+GTPA+T+RGF E+ VAE D A+
Sbjct: 339 VNKNAIPFDPKPPRVTSGIRIGTPAITTRGFTPEEMPLVAELIDRALLEG---------- 388
Query: 473 KLKDFVATLMSDESIQSEISNLRDKVEEYAKRFP 506
E++ R++V A P
Sbjct: 389 ----------PSEAL-------REEVRRLALAHP 405
>3h7f_A Serine hydroxymethyltransferase 1; cytoplasm, one-carbon
metabolism, pyridoxal phosphate, structural genomics;
HET: LLP; 1.50A {Mycobacterium tuberculosis}
Length = 447
Score = 530 bits (1368), Expect = 0.0
Identities = 191/478 (39%), Positives = 267/478 (55%), Gaps = 59/478 (12%)
Query: 38 QALNNEKAPAPWINQLNAPLEEIDPEIADIIELEKARQWKGLELIPSENFTSVSVMQAVG 97
+ +A ++APL E+DP+IA+++ E RQ LE+I SENF +V+QA G
Sbjct: 7 HHMGTLEAQTQGPGSMSAPLAEVDPDIAELLAKELGRQRDTLEMIASENFVPRAVLQAQG 66
Query: 98 SVMTNKYSEGYPGARYYGGNEYIDMAESLCQKRALDAFQLDPAKWGVNVQSLSGSPANFQ 157
SV+TNKY+EG PG RYYGG E++D+ E+L + RA F A++ NVQ SG+ AN
Sbjct: 67 SVLTNKYAEGLPGRRYYGGCEHVDVVENLARDRAKALFG---AEF-ANVQPHSGAQANAA 122
Query: 158 VYTALLKPHERIMALDLPHGGHLSHGYQTDTKKISAVSI---FFETMPYRLDESTGYIDY 214
V AL+ P ER++ LDL +GGHL+HG ++ +E Y +D +T ID
Sbjct: 123 VLHALMSPGERLLGLDLANGGHLTHG--------MRLNFSGKLYENGFYGVDPATHLIDM 174
Query: 215 EQLEKSAALFRPKLIVAGASAYARLYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPS 274
+ + +A FRPK+I+AG SAY R+ D+A R + D+ A +L DMAH +GLVAAG+ PS
Sbjct: 175 DAVRATALEFRPKVIIAGWSAYPRVLDFAAFRSIADEVGAKLLVDMAHFAGLVAAGLHPS 234
Query: 275 PFEYADVVTTTTHKSLRGPRGAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGLQGGP 334
P +ADVV+TT HK+L G R +I ++ Y IN AVFPG QGGP
Sbjct: 235 PVPHADVVSTTVHKTLGGGRSGLIVGKQ--------------QYAKAINSAVFPGQQGGP 280
Query: 335 HNHTISGLAVALKQVKTPEYKAYQEQVLSNSSKFARSLL-----ERGYDLVSGGTENHLV 389
H I+G AVALK TPE+ Q + LS + A L+ + G +VSGGT+ HLV
Sbjct: 281 LMHVIAGKAVALKIAATPEFADRQRRTLSGARIIADRLMAPDVAKAGVSVVSGGTDVHLV 340
Query: 390 LVNLRNKGIDGSRVEKVLESVHIAANKNTVPGD-VSAMVPGGIRMGTPALTSRGFVEEDF 448
LV+LR+ +DG E +L V I N+N VP D MV G+R+GTPAL +RGF + +F
Sbjct: 341 LVDLRDSPLDGQAAEDLLHEVGITVNRNAVPNDPRPPMVTSGLRIGTPALATRGFGDTEF 400
Query: 449 EKVAEFFDAAVKLALKIKGDTKGTKLKDFVATLMSDESIQSEISNLRDKVEEYAKRFP 506
+VA+ A+ ++S L+D+ A+ FP
Sbjct: 401 TEVADIIATAL------------------------ATGSSVDVSALKDRATRLARAFP 434
>3n0l_A Serine hydroxymethyltransferase; alpha beta class, 3-layer(ABA)
sandwich, CSGI transferase, structural genomics; HET:
MSE; 1.80A {Campylobacter jejuni}
Length = 417
Score = 527 bits (1361), Expect = 0.0
Identities = 190/457 (41%), Positives = 270/457 (59%), Gaps = 53/457 (11%)
Query: 54 NAPLEEIDPEIADIIELEKARQWKGLELIPSENFTSVSVMQAVGSVMTNKYSEGYPGARY 113
LE D EI D+ E RQ +GLE+I SENFT VM+ +GS++TNKY+EGYPG RY
Sbjct: 3 AMSLEMFDKEIFDLTNKELERQCEGLEMIASENFTLPEVMEVMGSILTNKYAEGYPGKRY 62
Query: 114 YGGNEYIDMAESLCQKRALDAFQLDPAKWGVNVQSLSGSPANFQVYTALLKPHERIMALD 173
YGG E++D E+L +R F K+ NVQ SGS AN VY AL+ P ++I+ +D
Sbjct: 63 YGGCEFVDEIETLAIERCKKLFN---CKF-ANVQPNSGSQANQGVYAALINPGDKILGMD 118
Query: 174 LPHGGHLSHGYQTDTKKISAVSI---FFETMPYRLDESTGYIDYEQLEKSAALFRPKLIV 230
L HGGHL+HG + VS +E+ Y ++ G IDYE++ + A +PKLIV
Sbjct: 119 LSHGGHLTHG--------AKVSSSGKMYESCFYGVEL-DGRIDYEKVREIAKKEKPKLIV 169
Query: 231 AGASAYARLYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPFEYADVVTTTTHKSL 290
GASAYAR+ D+A+ R++ D+ A + AD+AHI+GLV AG PSPF YA VV++TTHK+L
Sbjct: 170 CGASAYARVIDFAKFREIADEIGAYLFADIAHIAGLVVAGEHPSPFPYAHVVSSTTHKTL 229
Query: 291 RGPRGAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGLQGGPHNHTISGLAVALKQVK 350
RGPRG +I +E+ K KIN A+FPG+QGGP H I+ AV K
Sbjct: 230 RGPRGGIIMTND--EELAK-----------KINSAIFPGIQGGPLMHVIAAKAVGFKFNL 276
Query: 351 TPEYKAYQEQVLSNSSKFARSLLERGYDLVSGGTENHLVLVNLRNKGIDGSRVEKVLESV 410
+ E+K Y +QV +N+ A L++R + LVS GT+NHLVL++ ++ G + L +
Sbjct: 277 SDEWKVYAKQVRTNAQVLANVLMDRKFKLVSDGTDNHLVLMSFLDREFSGKDADLALGNA 336
Query: 411 HIAANKNTVPGD-VSAMVPGGIRMGTPALTSRGFVEEDFEKVAEFFDAAVKLALKIKGDT 469
I ANKNTVPG+ S + G+R+GTPALT+RGF E++ E V+ + +
Sbjct: 337 GITANKNTVPGEIRSPFITSGLRLGTPALTARGFKEKEMEIVSNYIADILD--------- 387
Query: 470 KGTKLKDFVATLMSDESIQSEISNLRDKVEEYAKRFP 506
+++E +Q I + ++++ A F
Sbjct: 388 -----------DVNNEKLQENI---KQELKKLASNFI 410
>2ez2_A Beta-tyrosinase, tyrosine phenol-lyase; PLP-dependent enzyme,
pyridoxal-5'-phosphate, domain lyase; 1.85A {Citrobacter
freundii} PDB: 2ez1_A 2vlf_A* 2vlh_A* 2yct_A* 1tpl_A
2tpl_A* 2ycn_A* 2yhk_A* 2ycp_A* 1c7g_A*
Length = 456
Score = 54.4 bits (130), Expect = 5e-08
Identities = 63/443 (14%), Positives = 132/443 (29%), Gaps = 82/443 (18%)
Query: 72 KARQWKGLELIPSENFTSVSVMQAVGSVMTNKYSEGYPGARYYGGNEYIDMAESLCQKRA 131
+ + L + + + ++ +++ G Y G+E E Q+
Sbjct: 29 QEAGYNTFLLNSKDIYIDLLTDSGTNAMSDKQWAGMMMGDEAYAGSENFYHLERTVQEL- 87
Query: 132 LDAFQLDPAKWGVN--VQSLSGSPANFQVYTALLKPHERIMA---LDLPHGGHLSHGYQT 186
+G V + G A + +KP + + +G
Sbjct: 88 ----------FGFKHIVPTHQGRGAENLLSQLAIKPGQYVAGNMYFTTTRYHQEKNG--- 134
Query: 187 DTKKISAVSIFFETM--PYRLDESTGYIDYEQLEKSAALFRPKLI----------VAGAS 234
V I + G ID ++L+K + I +AG
Sbjct: 135 ----AVFVDIVRDEAHDAGLNIAFKGDIDLKKLQKLIDEKGAENIAYICLAVTVNLAGGQ 190
Query: 235 AYARLYDYARIRKVCDKQKAVMLADMAHISG--------------LVAAGVIPSPFEYAD 280
+ + + +R++ + + D A ++ F YAD
Sbjct: 191 PVS-MANMRAVRELTEAHGIKVFYDATRCVENAYFIKEQEQGFENKSIAEIVHEMFSYAD 249
Query: 281 VVTTTTHKSLRGPRGAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGLQGGPHNHTIS 340
T + K G + E+ +E++ YE + GG +
Sbjct: 250 GCTMSGKKDCLVNIGGFLCMND--DEMFSSAKELVVVYEGMPS-------YGGLAGRDME 300
Query: 341 GLAVALKQVKTPEYKAYQEQVLSNSSKFARSLLERGYDLVSGGTENHLVLVNLR----NK 396
+A+ L++ EY ++ + L G +V H V ++ R +
Sbjct: 301 AMAIGLREAMQYEYIEHR---VKQVRYLGDKLKAAGVPIVE-PVGGHAVFLDARRFCEHL 356
Query: 397 GIDGSRVEKVLESVHI------------AANKNTVPGDVSAMVPGGIRMGTPALTSRGFV 444
D + + S+++ +A +N V G+ +R+ P R +
Sbjct: 357 TQDEFPAQSLAASIYVETGVRSMERGIISAGRNNVTGEHHRPKLETVRLTIP---RRVYT 413
Query: 445 EEDFEKVAEFFDAAVKLALKIKG 467
+ VA+ + I+G
Sbjct: 414 YAHMDVVADGIIKLYQHKEDIRG 436
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 53.5 bits (128), Expect = 1e-07
Identities = 53/308 (17%), Positives = 94/308 (30%), Gaps = 95/308 (30%)
Query: 239 LYD-YARIRKVCDKQKAVMLADMAHIS---GLVAAGVI-PSPFEYADVVTTTTHKSLRGP 293
LY + V ++ AD H G ++ +P K +R
Sbjct: 1635 LYKTSKAAQDVWNR------AD-NHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIREN 1687
Query: 294 RGAMIF---------FRKGVKEINKQGQEVMYAY-EDKINQ------AVFPGLQGGPHNH 337
AMIF K KEIN+ + + ++ A+
Sbjct: 1688 YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALT---------- 1737
Query: 338 TISGLAVALKQVKTPEYKAYQEQ-VLSNSSKFA-RSLLERGYD-LVSGG----TENHLVL 390
+ A ++ + + ++ + FA SL E Y L S E+ + +
Sbjct: 1738 LME---KAA-------FEDLKSKGLIPADATFAGHSLGE--YAALASLADVMSIESLVEV 1785
Query: 391 VNLRNKGIDGSRVEKVLESVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFEK 450
V R G+ + VP D G+ P + F +E +
Sbjct: 1786 VFYR--GM---------------TMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQY 1828
Query: 451 VAEFFDAAVKLALKI------------KGDTKGTKLKDFVATLMSDESIQS-EISNLR-- 495
V E ++I GD + L D V +++ +Q +I L+
Sbjct: 1829 VVERVGKRTGWLVEIVNYNVENQQYVAAGDLRA--L-DTVTNVLNFIKLQKIDIIELQKS 1885
Query: 496 ---DKVEE 500
++VE
Sbjct: 1886 LSLEEVEG 1893
Score = 53.1 bits (127), Expect = 2e-07
Identities = 95/563 (16%), Positives = 172/563 (30%), Gaps = 176/563 (31%)
Query: 10 LSSSVTNPIKRHLNHGS---------HYYVYMSSLPDQALNNEKAPAPWINQLNAPLEEI 60
+ + T P+ L+HGS + S L +Q + L P E
Sbjct: 1 MDAYSTRPLT--LSHGSLEHVLLVPTASFFIASQLQEQ----------FNKILPEPTEGF 48
Query: 61 --DPEIADIIELEKARQWKGLELIPSE-NFTSVSVMQAVGSVMTNKYSEGYPGARYYGGN 117
D E EL + L + S + V V ++ ++ Y GN
Sbjct: 49 AADDEPTTPAEL-VGKF---LGYVSSLVEPSKVGQFDQVLNLCLTEFEN-----CYLEGN 99
Query: 118 E---------YIDMAESLCQKRALDAFQLDPAKWGVNVQSLSGSPANFQVYTALLK---- 164
+ + + K + + + + ++ P + + +AL +
Sbjct: 100 DIHALAAKLLQENDTTLVKTKELIKNY--------ITARIMAKRPFDKKSNSALFRAVGE 151
Query: 165 PHERIMALDLPHGGH---------LSHGYQTDTKKISAVSIFFETMPYRL--------DE 207
+ +++A+ GG L YQT V + L D
Sbjct: 152 GNAQLVAI---FGGQGNTDDYFEELRDLYQTYH---VLVGDLIKFSAETLSELIRTTLDA 205
Query: 208 STGY---IDYEQ-LEKSAALFRPK---LIVAGAS----AYARLYDYARIRKVCDKQKAVM 256
+ ++ + LE + P L+ S +L Y K+ +
Sbjct: 206 EKVFTQGLNILEWLENPSN--TPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGEL 263
Query: 257 LADMA----HISGLVAAGVI------PSPFEYAD-VVTTTTHKSLRG----PRGAMIFFR 301
+ + H GLV A I S F +T +R P ++
Sbjct: 264 RSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPP-- 321
Query: 302 KGVKEINKQGQEV---MYA-----------YEDKINQ------AVFPGLQGGPHNHTISG 341
+++ + + V M + Y +K N V L G N +SG
Sbjct: 322 SILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSG 381
Query: 342 -------LAVALKQVKTPEYKAYQEQ----------VLSN-----SSKFARSLLERGYDL 379
L + L++ K P + +Q SN +S F LL DL
Sbjct: 382 PPQSLYGLNLTLRKAKAP---SGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDL 438
Query: 380 VSGGTENHLVL---------V-------NLRNKGIDGSRVEKVLESV-HIAAN-KNTVPG 421
++ + V V +LR + GS E++++ + + + T
Sbjct: 439 INKDLVKNNVSFNAKDIQIPVYDTFDGSDLRV--LSGSISERIVDCIIRLPVKWETTTQF 496
Query: 422 DVSAMV---PGGIRMGTPALTSR 441
+ ++ PGG G LT R
Sbjct: 497 KATHILDFGPGGAS-GLGVLTHR 518
Score = 28.9 bits (64), Expect = 5.2
Identities = 11/65 (16%), Positives = 20/65 (30%), Gaps = 14/65 (21%)
Query: 438 LTSR--GFVEEDFEK-VAEFFDAAVKLALKIKGDTKGTKLKDFVATLMSDESIQSEISNL 494
L + G+V E FD + L L +F + I + + L
Sbjct: 60 LVGKFLGYVSSLVEPSKVGQFDQVLNLCLT-----------EFENCYLEGNDIHALAAKL 108
Query: 495 RDKVE 499
+ +
Sbjct: 109 LQEND 113
Score = 28.9 bits (64), Expect = 6.1
Identities = 47/257 (18%), Positives = 74/257 (28%), Gaps = 108/257 (42%)
Query: 33 SSLPDQAL-----NNEKAPAP--------------WINQLNAPLEEIDP-EIADI----- 67
+SLP L NNE P+P ++N+ N+ L EI+ +
Sbjct: 317 TSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKN 376
Query: 68 --------------IELEKARQWKGLE----------LIPSENFTSVSVMQAVGSVMTNK 103
+ L KA+ GL+ L S F V+
Sbjct: 377 LVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVAS----------- 425
Query: 104 YSEGYPGARYYGGNEYIDMAESLCQKRAL-DAFQLDPAKW---------GVNVQSLSGS- 152
P ++ + + A L K + + + G +++ LSGS
Sbjct: 426 -----P---FH--SHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSI 475
Query: 153 -----------PANFQVYTALLKPHERIMALDLPHGGHLSHGYQTDTKK-------ISAV 194
P ++ T H LD GG G T K I A
Sbjct: 476 SERIVDCIIRLPVKWETTTQFKATH----ILDFGPGGASGLGVLTHRNKDGTGVRVIVA- 530
Query: 195 SIFFETMPYRLDESTGY 211
T+ D+ G+
Sbjct: 531 ----GTLDINPDDDYGF 543
>2x3l_A ORN/Lys/Arg decarboxylase family protein; lyase; HET: LLP; 2.00A
{Staphylococcus aureus}
Length = 446
Score = 48.3 bits (115), Expect = 4e-06
Identities = 33/184 (17%), Positives = 68/184 (36%), Gaps = 23/184 (12%)
Query: 236 YARLYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPFEY-ADVVTTTTHKSLRGPR 294
Y ++ + K + +L D AH + G S Y AD V + HK+L
Sbjct: 158 YGETFNVEEVIKSLHQLNIPVLIDEAHGAHFGLQGFPDSTLNYQADYVVQSFHKTLPALT 217
Query: 295 -GAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGLQG-GPHNHTISGLAVALKQVKTP 352
G++++ K Y + I + Q P ++ L A + KT
Sbjct: 218 MGSVLYIHKN------------APYRENIIEY-LSYFQTSSPSYLIMASLESAAQFYKTY 264
Query: 353 EYKAYQEQVLSNSSKFARSLLERGYDLVSGGTENHLVLVNLRNKGIDGSRVEKVLESVHI 412
+ + + + L +G++++ ++ L L+ ++ +G G ++ + HI
Sbjct: 265 DSTLFFAKRA----QLIECLENKGFEML--QVDDPLKLL-IKYEGFTGHDIQNWFMNAHI 317
Query: 413 AANK 416
Sbjct: 318 YLEL 321
>1ax4_A Tryptophanase; tryptophan biosynthesis, tryptophan indole-lyase,
pyridoxal 5'-phosphate, monovalent cation binding site;
HET: LLP; 2.10A {Proteus vulgaris} SCOP: c.67.1.2
Length = 467
Score = 45.2 bits (106), Expect = 4e-05
Identities = 48/363 (13%), Positives = 101/363 (27%), Gaps = 60/363 (16%)
Query: 150 SGSPANFQVYTALLKPHERIMALDLPHGGHLSHGYQTDTKKI----SAVSIFFETM--PY 203
G A ++ LLK ++ P H T A++I E
Sbjct: 99 QGRGAENILFPVLLKYKQKEGKAKNPVFISNFHFDTTAAHVELNGCKAINIVTEKAFDSE 158
Query: 204 RLDESTGYIDYEQLEK--------SAALFRPKLIVAGASAYARLYDY-ARIRKVCDKQKA 254
D+ G D ++L++ + + A + ++ +
Sbjct: 159 TYDDWKGDFDIKKLKENIAQHGADNIVAIVSTVTCNSAGGQPVSMSNLKEVYEIAKQHGI 218
Query: 255 VMLADMAHI--------------SGLVAAGVIPSPFEYADVVTTTTHKSLRGPRGAMIFF 300
++ D A VI ++YAD +T + K G ++
Sbjct: 219 FVVMDSARFCENAYFIKARDPKYKNATIKEVIFDMYKYADALTMSAKKDPLLNIGGLVAI 278
Query: 301 RKGVKEINKQGQEVMYAYEDKINQAVFPGLQGGPHNHTISGLAVALKQVKTPEYKAYQEQ 360
R +E+ + GG ++ + L++ EY Y+
Sbjct: 279 RD--------NEEIFTLARQRCVPMEGFVTYGGLAGRDMAAMVQGLEEGTEEEYLHYR-- 328
Query: 361 VLSNSSKFARSLLERGYDLVSGGTENHLVLVNLRNKGIDGSRVE---------------- 404
+ L E G + T H V V+ + +
Sbjct: 329 -IGQVKYLGDRLREAGIPIQY-PTGGHAVFVDCKKLVPQIPGDQFPAQAVINALYLESGV 386
Query: 405 KVLESVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFEKVAEFFDAAVKLALK 464
+ +E ++ G+ +R+ R + + + +A+ +
Sbjct: 387 RAVEIGSFLLGRDPATGEQKHADMEFMRLTIAR---RVYTNDHMDYIADALIGLKEKFAT 443
Query: 465 IKG 467
+KG
Sbjct: 444 LKG 446
>2vyc_A Biodegradative arginine decarboxylase; pyridoxal phosphate,
PLP-dependent E lyase, acid resistance; HET: LLP; 2.4A
{Escherichia coli}
Length = 755
Score = 45.1 bits (106), Expect = 5e-05
Identities = 46/279 (16%), Positives = 83/279 (29%), Gaps = 40/279 (14%)
Query: 128 QKRALDAFQLDPAKWGVNVQSLSGSPANFQVYTALLKPHERIMALDLPHGGHLS--HG-Y 184
+K A F D + V S +N + A + ++ ++ + H S G
Sbjct: 211 EKYAARVFGADRSWSVVV----GTSGSNRTIMQACMTDNDVVV---VDRNCHKSIEQGLM 263
Query: 185 QTDTK------KISAVSIFFETMPYRLDEST--GYIDYEQLEKSAALFRPKLIVAGASAY 236
T K + I P + T I L K A +P V Y
Sbjct: 264 LTGAKPVYMVPSRNRYGIIGPIYPQEMQPETLQKKISESPLTKDKAGQKPSYCVVTNCTY 323
Query: 237 ARL-YDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPS----------PFEYADVVTTT 285
+ Y+ + + +K + D A + T +
Sbjct: 324 DGVCYNAKEAQDLLEKTSDRLHFDEAWYGYARFNPIYADHYAMRGEPGDHNGPTVFATHS 383
Query: 286 THKSLRGPR-GAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGLQGGPHNHTISGLAV 344
THK L + I R+G IN + NQA P + V
Sbjct: 384 THKLLNALSQASYIHVREGRGAIN----------FSRFNQAYMMHATTSPLYAICASNDV 433
Query: 345 ALKQVKTPEYKAYQEQVLSNSSKFARSLLERGYDLVSGG 383
A+ + + ++V+ + F +++ + + G
Sbjct: 434 AVSMMDGNSGLSLTQEVIDEAVDFRQAMARLYKEFTADG 472
>1c4k_A Protein (ornithine decarboxylase); lyase; HET: PLP GTP; 2.70A
{Lactobacillus SP} SCOP: c.23.1.4 c.67.1.5 d.125.1.1
PDB: 1ord_A*
Length = 730
Score = 39.3 bits (91), Expect = 0.003
Identities = 35/274 (12%), Positives = 75/274 (27%), Gaps = 38/274 (13%)
Query: 128 QKRALDAFQLDPAKWGVNVQSLSGSPANFQVYTALLKPHERIMALDLPHGGHLS--HG-- 183
+K A + D + + S AN V +AL+ + ++ H S +
Sbjct: 179 EKHAARVYNADKTYFVLG----GSSNANNTVTSALVSNGDLVL---FDRNNHKSVYNSAL 231
Query: 184 YQTDTK------KISAVSIFFETMPYRLDEST--GYIDYEQLEKSAALFRPKLIVAGASA 235
+ + DE E++ +L V
Sbjct: 232 AMAGGRPVYLQTNRNPYGFIGGIYDSDFDEKKIRELAAKVDPERAKWKRPFRLAVIQLGT 291
Query: 236 YARL-YDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPF----------EYADVVTT 284
Y Y+ + K + D A + ++ + + +V
Sbjct: 292 YDGTIYNAHEVVKRIGHLCDYIEFDSAWVGYEQFIPMMRNSSPLLIDDLGPEDPGIIVVQ 351
Query: 285 TTHKSLRGPR-GAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGLQG-GPHNHTISGL 342
+ HK G + I + + ++ Y N + F P + L
Sbjct: 352 SVHKQQAGFSQTSQIHKKD-----SHIKGQLRYCDHKHFNNS-FNLFMSTSPFYPMYAAL 405
Query: 343 AVALKQVKTPEYKAYQEQVLSNSSKFARSLLERG 376
V + + +L + + + L++ G
Sbjct: 406 DVNAAMQEGEAGRKLWHDLLITTIEARKKLIKAG 439
>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 = 38.5 bits (89), Expect = 0.006
Identities = 44/268 (16%), Positives = 76/268 (28%), Gaps = 48/268 (17%)
Query: 128 QKRALDAFQLDPAKWGVNVQSLSGSPANFQVYTALLKPHERIMALDLPHGGHLS--HG-Y 184
++ F D + N S AN V I+ + H S H
Sbjct: 201 EQYIARVFNADRSYMVTN----GTSTANKIVGMYSAPAGSTIL---IDRNCHKSLTHLMM 253
Query: 185 QTDTKKISAVSIFFET--------MPYRLDESTGYIDYEQLEKSAALFRPKLIVAGASAY 236
+D I+F E ++++++ P V S Y
Sbjct: 254 MSD-----VTPIYFRPTRNAYGILGGIPQSEFQHATIAKRVKETPNATWPVHAVITNSTY 308
Query: 237 ARL-YDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPS--------PFEYADVVTTTTH 287
L Y+ I+K D + + D A + + + T +TH
Sbjct: 309 DGLLYNTDFIKKTLDVKS--IHFDSAWVPYTNFSPIYEGKCGMSGGRVEGKVIYETQSTH 366
Query: 288 KSLRGPR-GAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGLQGGPHNHTISGLAVAL 346
K L +MI + V E+ N+A PH ++ A
Sbjct: 367 KLLAAFSQASMIHVKGDV-------------NEETFNEAYMMHTTTSPHYGIVASTETAA 413
Query: 347 KQVKTPEYKAYQEQVLSNSSKFARSLLE 374
+K K + + KF + +
Sbjct: 414 AMMKGNAGKRLINGSIERAIKFRKEIKR 441
>2z67_A O-phosphoseryl-tRNA(SEC) selenium transferase; selenocysteine
biosynthesis, seven-stranded BETE-strand, PYR
5'-phosphate; HET: PLP; 2.50A {Methanococcus
maripaludis} SCOP: c.67.1.9
Length = 456
Score = 37.0 bits (85), Expect = 0.014
Identities = 28/215 (13%), Positives = 65/215 (30%), Gaps = 34/215 (15%)
Query: 215 EQLEKSAALFRPKLIVAGASAYA-RLYD-YARIRKVCDKQKAVMLADMAH-ISGLVAAGV 271
++K L +++ + + R D I K+C+ + + A+ I
Sbjct: 221 NAIKKEIELGNRPCVLSTLTFFPPRNSDDIVEIAKICENYDIPHIINGAYAIQNNYYLEK 280
Query: 272 IPSPF-EYADVVTTTTHKSLRGPRGAMIFFRKGVKEINKQGQEVMYAYEDKINQAVFPGL 330
+ F D V +++ K+L P G + + + + + +
Sbjct: 281 LKKAFKYRVDAVVSSSDKNLLTPIGGGLVYST----------------DAEFIKEISLSY 324
Query: 331 QGGPHNHTISGLAVALKQVKTPEYKAYQEQVLSNSSKFARSL-----------LERGYDL 379
G + V+L + + Y + ++ L L+ +
Sbjct: 325 PGRASATPVVNTLVSLLSMGSKNYLELVKNQKNSKKLLDELLNDLSKKTGGKFLDVESPI 384
Query: 380 VSG---GTENHLVLVNLRNKGIDGSRVEKVLESVH 411
S ++ + L N + G R K +
Sbjct: 385 ASCISVNSDPVEIAAKLYNLRVTGPRGIKKTDHFG 419
>3e9k_A Kynureninase; kynurenine-L-hydrolase, kynurenine hydrolase,
pyridoxal-5'-phosphate, inhibitor complex, 3-hydroxy
hippur hydroxyhippuric acid, PLP; HET: PLP 3XH; 1.70A
{Homo sapiens} PDB: 2hzp_A*
Length = 465
Score = 35.0 bits (80), Expect = 0.066
Identities = 45/328 (13%), Positives = 95/328 (28%), Gaps = 33/328 (10%)
Query: 156 FQVYTALLKPHERIMALDLPHGGHLSHGY----QTDTKKISAVSIFFETMPYRLDESTGY 211
+ + KP + + L S Y Q ++ P +E+
Sbjct: 142 HLLMLSFFKPTPKRYKILLEAKAFPSDHYAIESQLQLHGLNIEESMRMIKPREGEETLRI 201
Query: 212 IDYEQLEKSAALFRPKLIVAGASAYA--RLYDYARIRKVCDKQKAVMLADMAHISGLVAA 269
D ++ + +I+ + + ++ I K + + D+AH G V
Sbjct: 202 EDILEVIEKEGD-SIAVILFSGVHFYTGQHFNIPAITKAGQAKGCYVGFDLAHAVGNVEL 260
Query: 270 GVIPSPFEYADVVTTTTHKSLRGPRGAMIFFRKGVKEINK--------QGQEVMYAYEDK 321
+ ++A ++K L G + K + G E+ ++
Sbjct: 261 YLHDWGVDFA---CWCSYKYLNAGAGGIAGAFIHEKHAHTIKPALVGWFGHELSTRFKMD 317
Query: 322 INQAVFPG----LQGGPHNHTISGLAVALKQVKTPEYKAYQEQVLSNSSKFARSLLERGY 377
+ PG P + L +L+ K KA +++ + + +
Sbjct: 318 NKLQLIPGVCGFRISNPPILLVCSLHASLEIFKQATMKALRKKSVLLTGYLEYLIKHNYG 377
Query: 378 DLVSGGTENHLVLVNLRNKGIDGS----RVEKVLESVHIAANKNTVPGDVSAMVPGGIRM 433
+ + + ++ + G + V K V D P GIR+
Sbjct: 378 KDKAATKKPVVNIITPSHVEERGCQLTITFSVPNKDVFQELEKRGVVCDK--RNPNGIRV 435
Query: 434 G-TPALTSRGFVEEDFEKVAEFFDAAVK 460
P S D K + +
Sbjct: 436 APVPLYNS----FHDVYKFTNLLTSILD 459
>1mdo_A ARNB aminotransferase; type 1 aminotransferase fold; HET: MSE PMP;
1.70A {Salmonella typhimurium} SCOP: c.67.1.4 PDB:
1mdx_A* 1mdz_A*
Length = 393
Score = 34.4 bits (80), Expect = 0.078
Identities = 17/62 (27%), Positives = 27/62 (43%), Gaps = 12/62 (19%)
Query: 206 DESTGYIDYEQLEKSAAL-FRPKLIV----AGASAYARLYDYARIRKVCDKQKAVMLADM 260
D T + E +E AA+ + K I+ AGA A D I + ++ ++ D
Sbjct: 109 DRDTLMVTPEHIE--AAITPQTKAIIPVHYAGAPA-----DLDAIYALGERYGIPVIEDA 161
Query: 261 AH 262
AH
Sbjct: 162 AH 163
>1qz9_A Kynureninase; kynurenine, tryptophan, PLP, vitamin B6,
pyridoxal-5'-phosph hydrolase; HET: PLP P3G; 1.85A
{Pseudomonas fluorescens} SCOP: c.67.1.3
Length = 416
Score = 34.3 bits (79), Expect = 0.098
Identities = 37/246 (15%), Positives = 80/246 (32%), Gaps = 48/246 (19%)
Query: 238 RLYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPFEYADVVTTTTHKSLRGPRG-- 295
++D + + + A+ + D+AH +G V + + AD T+K L G G
Sbjct: 180 YMHDMQALTALSHECGALAIWDLAHSAGAVPVDLHQAG---ADYAIGCTYKYLNGGPGSQ 236
Query: 296 AMIFFRKGVKEINKQ------GQEVMYAYEDKINQAVFPG----LQGGPHNHTISGLAVA 345
A ++ + ++ Q G +A E + + G L G +++ +
Sbjct: 237 AFVWVSPQLCDLVPQPLSGWFGHSRQFAMEPRYEPS--NGIARYLCGTQPITSLAMVECG 294
Query: 346 LKQVKTPEYKAYQEQVLSNSSKFARSLLER----GYDLVS-------GGTENHLVLVNLR 394
L + + + + L+ + F + +R LV+ G V+
Sbjct: 295 LDVFAQTDMASLRRKSLALTDLFIELVEQRCAAHELTLVTPREHAKRGSH------VSFE 348
Query: 395 NKGIDGSRVEKVLESVHIAANKNTVPGDVSAMVPGGIRMGTPALTSRGFVEEDFEKVAEF 454
+ +G V + L + P +R G L + + +
Sbjct: 349 HP--EGYAVIQALIDRGVI---------GDYREPRIMRFGFTPLYTT---FTEVWDAVQI 394
Query: 455 FDAAVK 460
+
Sbjct: 395 LGEILD 400
>2fnu_A Aminotransferase; protein-product complex, structural genomics,
montreal-kings bacterial structural genomics initiative,
BSGI; HET: PMP UD1; 1.50A {Helicobacter pylori} SCOP:
c.67.1.4 PDB: 2fni_A* 2fn6_A*
Length = 375
Score = 33.6 bits (78), Expect = 0.13
Identities = 19/60 (31%), Positives = 27/60 (45%), Gaps = 10/60 (16%)
Query: 207 ESTGYIDYEQLEKSAALFRPKLIV----AGASAYARLYDYARIRKVCDKQKAVMLADMAH 262
++ G ID LEK R K IV AG S + ++K+C K L+D +H
Sbjct: 104 KNDGNIDELALEK-LINERTKAIVSVDYAGKSV-----EVESVQKLCKKHSLSFLSDSSH 157
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.7 bits (68), Expect = 0.57
Identities = 13/53 (24%), Positives = 18/53 (33%), Gaps = 26/53 (49%)
Query: 6 ALGRLSSSVTNPIKRHLNHGSHYYVYMSSLPDQALNNEKAPAPWINQLNAPLE 58
AL +L +S +K +Y D A PA I A +E
Sbjct: 21 ALKKLQAS----LK----------LYA---DDSA------PALAI---KATME 47
>3no2_A Uncharacterized protein; six-bladed beta-propeller, structural
genomics, joint center structural genomics, JCSG,
protein structure initiative; HET: MSE CIT PEG; 1.35A
{Bacteroides caccae}
Length = 276
Score = 31.4 bits (70), Expect = 0.74
Identities = 18/134 (13%), Positives = 41/134 (30%), Gaps = 6/134 (4%)
Query: 297 MIFFRKGVKEINKQGQEV-MYAYEDKINQAVFPGLQGGPHNHTISG-----LAVALKQVK 350
+ + KG K I + G+E+ A L G G L V +K
Sbjct: 51 LFSYSKGAKMITRDGRELWNIAAPAGCEMQTARILPDGNALVAWCGHPSTILEVNMKGEV 110
Query: 351 TPEYKAYQEQVLSNSSKFARSLLERGYDLVSGGTENHLVLVNLRNKGIDGSRVEKVLESV 410
+ + ++ + ++G LV + + + + ++ ++ S
Sbjct: 111 LSKTEFETGIERPHAQFRQINKNKKGNYLVPLFATSEVREIAPNGQLLNSVKLSGTPFSS 170
Query: 411 HIAANKNTVPGDVS 424
N + +
Sbjct: 171 AFLDNGDCLVACGD 184
>2oqx_A Tryptophanase; lyase, pyridoxal phosphate, tryptophan catabolism;
HET: CME EPE; 1.90A {Escherichia coli} SCOP: c.67.1.2
PDB: 2c44_A 2v1p_A* 2v0y_A*
Length = 467
Score = 31.1 bits (70), Expect = 0.82
Identities = 41/278 (14%), Positives = 78/278 (28%), Gaps = 46/278 (16%)
Query: 150 SGSPANFQVYTALLKPHERIMALDLPHGGHLSHGYQTDTK------KISAVSIFFE--TM 201
G A L+K E+ LD S+ + T+ + +++ +
Sbjct: 97 QGRGAEQIYIPVLIKKREQEKGLDRSKMVAFSNYFFDTTQGHSQINGCTVRNVYIKEAFD 156
Query: 202 PYRLDESTGYIDYEQLE---KSAALFRPKLIV-------AGASAYARLYDYARIRKVCDK 251
+ G D E LE + IV AG + L + + + K
Sbjct: 157 TGVRYDFKGNFDLEGLERGIEEVGPNNVPYIVATITSNSAGGQPVS-LANLKAMYSIAKK 215
Query: 252 -------------QKAVMLADMAHISGLVAAGVIPSP-FEYADVVTTTTHKSLRGPRGAM 297
+ A + I ++YAD++ + K P G +
Sbjct: 216 YDIPVVMDSARFAENAYFIKQREAEYKDWTIEQITRETYKYADMLAMSAKKDAMVPMGGL 275
Query: 298 IFFRK-GVKEINKQGQEVMYAYEDKINQAVFPGLQGGPHNHTISGLAVALKQVKTPEYKA 356
+ + ++ + + + E GL+GG GL +
Sbjct: 276 LCMKDDSFFDVYTECRTLCVVQEGFPTYG---GLEGGAMERLAVGLYDGMNL-------D 325
Query: 357 YQEQVLSNSSKFARSLLERGYDLVSGGTENHLVLVNLR 394
+ ++ L E G G H V+
Sbjct: 326 WLAYRIAQVQYLVDGLEEIGVVCQQAGG--HAAFVDAG 361
>3f0h_A Aminotransferase; RER070207000802, structural genomics, JOIN for
structural genomics, JCSG; HET: MSE LLP; 1.70A
{Eubacterium rectale}
Length = 376
Score = 31.1 bits (71), Expect = 0.82
Identities = 19/77 (24%), Positives = 29/77 (37%), Gaps = 8/77 (10%)
Query: 239 LYDYARIRKVCDKQKAVMLADMAHISGLVAAGVIPSPFE--YADVVTTTTHKSLRGPRG- 295
LYD I + C K + D +S P ADV+ T + K L P G
Sbjct: 160 LYDTMMIGEFCKKNNMFFVCDC--VSAF---LADPFNMNECGADVMITGSQKVLACPPGI 214
Query: 296 AMIFFRKGVKEINKQGQ 312
++I E ++ +
Sbjct: 215 SVIVLAPRGVERVEKSK 231
>1zcz_A Bifunctional purine biosynthesis protein PURH; TM1249; HET: PG4;
1.88A {Thermotoga maritima} SCOP: c.24.1.3 c.97.1.4
Length = 464
Score = 30.9 bits (71), Expect = 1.2
Identities = 10/40 (25%), Positives = 20/40 (50%), Gaps = 6/40 (15%)
Query: 368 FARSLLERGYDLVS-GGTENHLVLVNLRNKGIDGSRVEKV 406
R L E+G+++ + GT L++ GI+ + V +
Sbjct: 29 ILRELHEKGWEIWASSGTAKF-----LKSNGIEANDVSTI 63
>1j2p_A Alpha-ring, proteasome alpha subunit; hydrolase; 2.60A
{Archaeoglobus fulgidus} SCOP: d.153.1.4 PDB: 1j2q_A*
Length = 246
Score = 30.4 bits (69), Expect = 1.3
Identities = 15/84 (17%), Positives = 33/84 (39%), Gaps = 13/84 (15%)
Query: 433 MGTPALTSRGFVEEDFEKVAEFFDAAVKLALKIKGDTKGTKLKDF---VATL-------- 481
+G + F E+++ F D A+ L L G + ++L V +
Sbjct: 164 IGMGRMAVTEFFEKEYRDDLSF-DDAMVLGLVAMGLSIESELVPENIEVGYVKVDDRTFK 222
Query: 482 -MSDESIQSEISNLRDKVEEYAKR 504
+S E ++ + +++ E K+
Sbjct: 223 EVSPEELKPYVERANERIRELLKK 246
>4ehi_A Bifunctional purine biosynthesis protein PURH; structural genomics,
center for structural genomics of infec diseases, csgid;
HET: MSE BTB; 2.28A {Campylobacter jejuni subsp}
Length = 534
Score = 30.5 bits (70), Expect = 1.3
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 1/22 (4%)
Query: 368 FARSLLERGYDLVS-GGTENHL 388
F + L G++++S GGT L
Sbjct: 40 FGKELENLGFEILSTGGTFKLL 61
>2yvq_A Carbamoyl-phosphate synthase; conserved hypothetical protein,
structural genomics, NPPSFA; 1.98A {Homo sapiens}
Length = 143
Score = 29.4 bits (67), Expect = 1.5
Identities = 15/94 (15%), Positives = 24/94 (25%), Gaps = 27/94 (28%)
Query: 369 ARSLLERGYDLV-SGGTENHLVLVNLRNKGIDGSRVEKVLESV----------HIAANK- 416
A L G+ L + T + L + + V + I
Sbjct: 43 AEQLHNEGFKLFATEATSDWL-----NANNVPATPVAWPSQEGQNPSLSSIRKLIRDGSI 97
Query: 417 ----NTVPGDVSAMVPG-GIR-----MGTPALTS 440
N + + IR G P LT+
Sbjct: 98 DLVINLPNNNTKFVHDNYVIRRTAVDSGIPLLTN 131
>3zzm_A Bifunctional purine biosynthesis protein PURH; transferase,
hydrolase; HET: JLN; 2.20A {Mycobacterium tuberculosis}
PDB: 4a1o_A*
Length = 523
Score = 30.5 bits (70), Expect = 1.5
Identities = 10/40 (25%), Positives = 19/40 (47%), Gaps = 6/40 (15%)
Query: 368 FARSLLERGYDLVS-GGTENHLVLVNLRNKGIDGSRVEKV 406
A+ L G +++S G T + + GI + VE++
Sbjct: 26 LAQGLSAAGVEIISTGSTAKT-----IADTGIPVTPVEQL 60
>2qbw_A PDZ-fibronectin fusion protein; fibronectin PDZ, unknown function;
1.80A {Homo sapiens} PDB: 3ch8_A
Length = 195
Score = 29.5 bits (65), Expect = 1.9
Identities = 23/142 (16%), Positives = 47/142 (33%), Gaps = 9/142 (6%)
Query: 304 VKEINKQGQ-EVMYAYEDKINQAVFPGLQGGPHNHTISGLAVA--------LKQVKTPEY 354
V + +G + DKI QA H +S L +++V
Sbjct: 28 VTRVQPEGPASKLLQPGDKIIQANGYSFINIEHGQAVSLLKTFQNTVELIIVREVGNGAK 87
Query: 355 KAYQEQVLSNSSKFARSLLERGYDLVSGGTENHLVLVNLRNKGIDGSRVEKVLESVHIAA 414
+ + +V + S + ++V+ + L+ + G+ R+ +
Sbjct: 88 QEIRVRVEKDGGSGGVSSVPTNLEVVAATPTSLLISWDASYYGVSYYRITYGETGGNSPV 147
Query: 415 NKNTVPGDVSAMVPGGIRMGTP 436
+ TVP S G++ G
Sbjct: 148 QEFTVPYSSSTATISGLKPGVD 169
>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor,
protein transport-exchang complex; HET: GDP; 1.46A {Bos
taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A*
1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A*
1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A*
2a5f_A* 2j5x_A* 1e0s_A* ...
Length = 164
Score = 29.1 bits (66), Expect = 2.2
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
K+ E PT+GF ET++YKN
Sbjct: 21 KLGEIVTTIPTIGFNVETVEYKN 43
>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without
magnesium, ARF family, RAS superfamily, G-domain,
signaling protein; HET: MES GDP; 1.70A {Mus musculus}
SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*
Length = 181
Score = 29.1 bits (66), Expect = 2.2
Identities = 5/23 (21%), Positives = 12/23 (52%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
E+ + PT GF ++++ +
Sbjct: 37 ASEDISHITPTQGFNIKSVQSQG 59
>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF
family; HET: CME GDP; 1.80A {Mus musculus} SCOP:
c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*
Length = 186
Score = 28.7 bits (65), Expect = 3.0
Identities = 6/23 (26%), Positives = 13/23 (56%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
E+ PT+GF +T++++
Sbjct: 39 NGEDVDTISPTLGFNIKTLEHRG 61
>1upt_A ARL1, ADP-ribosylation factor-like protein 1;
hydrolase/protein-binding, complex (GTPase/golgin),
golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP;
1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*
Length = 171
Score = 28.7 bits (65), Expect = 3.1
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
+V E PT+GF ET+ YKN
Sbjct: 28 QVGEVVTTIPTIGFNVETVTYKN 50
>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport
protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8
Length = 187
Score = 28.8 bits (65), Expect = 3.2
Identities = 6/23 (26%), Positives = 9/23 (39%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
+ E PT+G E + N
Sbjct: 37 SMNEVVHTSPTIGSNVEEIVINN 59
>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane
trafficking, structural genomics consortium, SGC,
transport protein; HET: GDP; 1.70A {Homo sapiens} PDB:
2h16_A* 1z6y_A* 1yzg_A*
Length = 181
Score = 28.8 bits (65), Expect = 3.3
Identities = 6/23 (26%), Positives = 9/23 (39%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
+ E PT+G E + N
Sbjct: 42 SMNEVVHTSPTIGSNVEEIVINN 64
>3bk2_A RNAse J, metal dependent hydrolase; endoribonuclease,
exoribonuclease, metallo-beta-lactamase; HET: U5P; 2.10A
{Thermus thermophilus} PDB: 3bk1_A* 3t3o_A* 3t3n_A*
Length = 562
Score = 29.4 bits (67), Expect = 3.4
Identities = 14/79 (17%), Positives = 28/79 (35%), Gaps = 19/79 (24%)
Query: 434 GTPALTSRGFVEED---FEKVAEFFDAAVKLALKIKGDTKGTKLKDFVATLMSDESIQSE 490
+ SRGFV+ +V A+K ++ K E I+ +
Sbjct: 492 PVVEVVSRGFVKAGERLLGEVRRMALEALKNGVREKKPL---------------ERIRDD 536
Query: 491 I-SNLRDKVEEYAKRFPTV 508
I ++ +++ R P +
Sbjct: 537 IYYPVKKFLKKATGRDPMI 555
>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta
barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A
{Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*
Length = 190
Score = 28.3 bits (64), Expect = 4.1
Identities = 6/23 (26%), Positives = 8/23 (34%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
K + A PT E + N
Sbjct: 44 KNDRLATLQPTWHPTSEELAIGN 66
>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein
transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP:
c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*
Length = 198
Score = 28.4 bits (64), Expect = 4.1
Identities = 4/23 (17%), Positives = 8/23 (34%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
K + + PT+ E +
Sbjct: 46 KDDRLGQHVPTLHPTSEELTIAG 68
>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural
genomics, structural G consortium, SGC, protein
transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8
PDB: 1z6x_A* 3aq4_A*
Length = 192
Score = 28.4 bits (64), Expect = 4.3
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
K+ E PT+GF ET++YKN
Sbjct: 50 KLGEIVTTIPTIGFNVETVEYKN 72
>2vty_A Protein F1, F1L; BCL-2, apoptosis; 2.10A {Vaccinia virus}
Length = 182
Score = 28.2 bits (62), Expect = 4.5
Identities = 26/110 (23%), Positives = 38/110 (34%), Gaps = 8/110 (7%)
Query: 199 ETMPYRLDESTGYIDYEQLEKSAALFRPKLIVAGA---SAYARLYDYAR-----IRKVCD 250
E M YR D+ST +DY E+ + + ++ Y +L R I CD
Sbjct: 35 ENMVYRFDKSTNILDYLSTERDHVMMAVRYYMSKQRLDDLYRQLPTKTRSYIDIINIYCD 94
Query: 251 KQKAVMLADMAHISGLVAAGVIPSPFEYADVVTTTTHKSLRGPRGAMIFF 300
K DM + + + +V T G R A I F
Sbjct: 95 KVSNDYNRDMNIMYDMASTKSFTVYDINNEVNTIMLDNKGLGVRLATISF 144
>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase,
nucleotide-binding; HET: GDP; 2.10A {Leishmania major}
Length = 189
Score = 28.0 bits (63), Expect = 5.2
Identities = 9/23 (39%), Positives = 13/23 (56%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
+ + PTVG ET++YKN
Sbjct: 43 HLGDVVTTVPTVGVNLETLQYKN 65
>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation
factor 1; structural genomics consortium, GTPase
activation; HET: GDP; 2.80A {Homo sapiens}
Length = 329
Score = 28.7 bits (64), Expect = 5.2
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
K+ E PT+GF ET++YKN
Sbjct: 186 KLGEIVTTIPTIGFNVETVEYKN 208
>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein
binding; HET: GDP; 3.17A {Saccharomyces cerevisiae}
SCOP: c.37.1.8
Length = 183
Score = 28.0 bits (63), Expect = 5.4
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
++ E PT+GF ET+ YKN
Sbjct: 39 QIGEVVTTKPTIGFNVETLSYKN 61
>1iru_A 20S proteasome; cell cycle, immune response, proteolysis,
ubiquitin, hydrolase; 2.75A {Bos taurus} SCOP: d.153.1.4
PDB: 3unb_G* 3une_G 3unf_G* 3unh_G
Length = 246
Score = 28.3 bits (64), Expect = 6.1
Identities = 11/72 (15%), Positives = 27/72 (37%), Gaps = 13/72 (18%)
Query: 439 TSRGFVEEDFEKVAEF-FDAAVKLALKIKGDTKGTKLKDF---VAT---------LMSDE 485
S F+E+ +K ++ F+ V+ A+ K V ++++
Sbjct: 174 ESTSFLEKKVKKKFDWTFEQTVETAITCLSTVLSIDFKPSEIEVGVVTVENPKFRILTEA 233
Query: 486 SIQSEISNLRDK 497
I + + L ++
Sbjct: 234 EIDAHLVALAER 245
>3lvq_E ARF-GAP with SH3 domain, ANK repeat and PH domain containing
protein 3, ADP-ribosylation...; GDP, ASAP3, UPLC1,
linkers, alternat splicing; HET: GDP; 3.38A {Homo
sapiens} PDB: 3lvr_E*
Length = 497
Score = 28.3 bits (63), Expect = 6.2
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 497 KVEEYAKRFPTVGFEKETMKYKN 519
K+ + PTVGF ET+ YKN
Sbjct: 343 KLGQSVTTIPTVGFNVETVTYKN 365
>1a9x_A Carbamoyl phosphate synthetase (large chain); amidotransferase,
thioester; HET: CYG ADP; 1.80A {Escherichia coli} SCOP:
a.92.1.1 c.24.1.1 c.30.1.1 c.30.1.1 d.142.1.2 d.142.1.2
PDB: 1ce8_A* 1m6v_A* 1c30_A* 1bxr_A* 1c3o_A* 1cs0_A*
1jdb_B* 1kee_A* 1t36_A*
Length = 1073
Score = 28.6 bits (65), Expect = 6.6
Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 6/41 (14%)
Query: 369 ARSLLERGYDLVS-GGTENHLVLVNLRNKGIDGSRVEKVLE 408
A LL++G++L + GT L GI+ V KV E
Sbjct: 961 AAKLLKQGFELDATHGTAIVL-----GEAGINPRLVNKVHE 996
>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 = 27.9 bits (63), Expect = 9.0
Identities = 24/107 (22%), Positives = 37/107 (34%), Gaps = 30/107 (28%)
Query: 213 DYEQLEK-----SAALFRPKLIVA-------GASAYARLYDYARIRKVCDKQKAVMLADM 260
D ++LE A R LI G A + + + DK A+++ D
Sbjct: 160 DMQELEARLKEAREAGARHVLIATDGVFSMDGVIA-----NLKGVCDLADKYDALVMVDD 214
Query: 261 AHISGLV---------AAGVIPSPFEYADVVTTTTHKSLRGPRGAMI 298
+H G V V+ D++T T K+L G G
Sbjct: 215 SHAVGFVGENGRGSHEYCDVMGRV----DIITGTLGKALGGASGGYT 257
>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane
trafficking, structural genomics consortium, SGC,
transport protein; HET: GTP; 2.00A {Homo sapiens}
Length = 190
Score = 27.2 bits (61), Expect = 9.0
Identities = 6/14 (42%), Positives = 8/14 (57%)
Query: 506 PTVGFEKETMKYKN 519
PT+GF E K +
Sbjct: 53 PTIGFSIEKFKSSS 66
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
0.315 0.132 0.376
Gapped
Lambda K H
0.267 0.0837 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,994,993
Number of extensions: 496859
Number of successful extensions: 1424
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1378
Number of HSP's successfully gapped: 70
Length of query: 519
Length of database: 6,701,793
Length adjustment: 98
Effective length of query: 421
Effective length of database: 3,965,535
Effective search space: 1669490235
Effective search space used: 1669490235
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 59 (26.3 bits)