RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 013217
(447 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 = 809 bits (2093), Expect = 0.0
Identities = 270/451 (59%), Positives = 329/451 (72%), Gaps = 9/451 (1%)
Query: 6 PEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYID 65
EV +II KE RQ LELIASENF SRAV+EA+GSCL NKYS G PG+RYYGG E+ID
Sbjct: 30 AEVYDIIKKESNRQRVGLELIASENFASRAVLEALGSCLNNKYSLGYPGQRYYGGTEHID 89
Query: 66 ELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLS 125
ELETLCQKRAL A+ LD WGVNVQP SGSPANF VYTA+++PH RIMGLDLP GGHL+
Sbjct: 90 ELETLCQKRALQAYGLDPQCWGVNVQPYSGSPANFAVYTALVEPHGRIMGLDLPDGGHLT 149
Query: 126 HGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFD 185
HGFMT K+++S TSI+FESM Y+++ TG +DYD LE+ A LF PKLIIAG S Y R+ D
Sbjct: 150 HGFMTDKKKISATSIFFESMAYKVNPDTGYIDYDRLEENARLFHPKLIIAGTSCYSRNLD 209
Query: 186 YPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFK 245
Y R+R+IAD GA LM DMAHISGLV A VV PF++C VVTTTTHK+LRG R GMIF++
Sbjct: 210 YGRLRKIADENGAYLMADMAHISGLVVAGVVPSPFEHCHVVTTTTHKTLRGCRAGMIFYR 269
Query: 246 KDP---------VLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNK 296
+ + LES IN+AVFPGLQGGPHNH I G+AV LK A +PEFK YQ +
Sbjct: 270 RGVRSVDPKTGKEILYNLESLINSAVFPGLQGGPHNHAIAGVAVALKQAMTPEFKEYQRQ 329
Query: 297 VVSNCRALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVP 356
VV+NCRAL++ LVELGYK+V+GGSDNHL+LVDLR G DG R EK+L+ SI NKN+ P
Sbjct: 330 VVANCRALSAALVELGYKIVTGGSDNHLILVDLRSKGTDGGRAEKVLEACSIACNKNTCP 389
Query: 357 GDKSALVPGGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKLVQGSKLQDFMNF 416
GDKSAL P G+R+G+PA+T+RG EK+F +A FIH G+E+T++ +
Sbjct: 390 GDKSALRPSGLRLGTPALTSRGLLEKDFQKVAHFIHRGIELTVQIQDDTGPRATLKEFKE 449
Query: 417 VTSPNFSLMNNVADLRGRVEALTTQFPIPGV 447
+ + V LR VE+ FP+PG+
Sbjct: 450 KLAGDEKHQRAVRALRQEVESFAALFPLPGL 480
>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 = 807 bits (2087), Expect = 0.0
Identities = 267/450 (59%), Positives = 335/450 (74%), Gaps = 12/450 (2%)
Query: 6 PEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYID 65
PE+ E++ +EK+RQ + LELIASENF SRA +EA+GSCL NKYSEG PGKRYYGG E +D
Sbjct: 40 PEMWELLQREKDRQCRGLELIASENFCSRAALEALGSCLNNKYSEGYPGKRYYGGAEVVD 99
Query: 66 ELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLS 125
E+E LCQ+RAL AF+LD +WGVNVQP SGSPAN VYTA+L+PHDRIMGLDLP GGHL+
Sbjct: 100 EIELLCQRRALEAFDLDPAQWGVNVQPYSGSPANLAVYTALLQPHDRIMGLDLPDGGHLT 159
Query: 126 HGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFD 185
HG+M+ +R+S TSI+FESMPY+L+ TGL+DY+ L TA LFRP+LIIAG SAY R D
Sbjct: 160 HGYMSDVKRISATSIFFESMPYKLNPKTGLIDYNQLALTARLFRPRLIIAGTSAYARLID 219
Query: 186 YPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFK 245
Y RMR++ D V A L+ DMAHISGLVAA V+ PFK+ D+VTTTTHK+LRG R G+IF++
Sbjct: 220 YARMREVCDEVKAHLLADMAHISGLVAAKVIPSPFKHADIVTTTTHKTLRGARSGLIFYR 279
Query: 246 KDP---------VLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNK 296
K + E IN AVFP LQGGPHNH I +AV LK A +P F+ Y +
Sbjct: 280 KGVKAVDPKTGREIPYTFEDRINFAVFPSLQGGPHNHAIAAVAVALKQACTPMFREYSLQ 339
Query: 297 VVSNCRALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVP 356
V+ N RA+A L+E GY LVSGG+DNHLVLVDLRP G+DGAR E++L++ SIT NKN+ P
Sbjct: 340 VLKNARAMADALLERGYSLVSGGTDNHLVLVDLRPKGLDGARAERVLELVSITANKNTCP 399
Query: 357 GDKSALVPGGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKLVQGSKLQDFMNF 416
GD+SA+ PGG+R+G+PA+T+R F E +F + DFI EGV I LE K + +KLQDF +F
Sbjct: 400 GDRSAITPGGLRLGAPALTSRQFREDDFRRVVDFIDEGVNIGLEVKS--KTAKLQDFKSF 457
Query: 417 VTSPNFSLMNNVADLRGRVEALTTQFPIPG 446
+ + +A+LR RVE FP+PG
Sbjct: 458 LLK-DSETSQRLANLRQRVEQFARAFPMPG 486
>2dkj_A Serine hydroxymethyltransferase; PLP dependent enzyme, structural
genomics; HET: PLP; 1.15A {Thermus thermophilus}
Length = 407
Score = 572 bits (1477), Expect = 0.0
Identities = 200/441 (45%), Positives = 259/441 (58%), Gaps = 43/441 (9%)
Query: 6 PEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYID 65
+ E+I E++RQ + LELIASENF S+ V EAVGS LTNKY+EG PG RYYGG E ID
Sbjct: 9 EALFELIALEEKRQREGLELIASENFVSKQVREAVGSVLTNKYAEGYPGARYYGGCEVID 68
Query: 66 ELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLS 125
+E+L +RA A F NVQP SGS AN VY A+++P D +MG+DL GGHL+
Sbjct: 69 RVESLAIERAKALFGAAW----ANVQPHSGSQANMAVYMALMEPGDTLMGMDLAAGGHLT 124
Query: 126 HGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFD 185
HG + SG ++ + Y + T L+D + + + A+ RPK+I+AGASAYPR +D
Sbjct: 125 HGS---RVNFSG--KLYKVVSYGVRPDTELIDLEEVRRLALEHRPKVIVAGASAYPRFWD 179
Query: 186 YPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFK 245
+ R+IAD VGA L++DMAH +GLVAA + +P Y VVT+TTHK+LRGPRGG+I
Sbjct: 180 FKAFREIADEVGAYLVVDMAHFAGLVAAGLHPNPLPYAHVVTSTTHKTLRGPRGGLILSN 239
Query: 246 KDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRALA 305
EL I+ +FPG+QGGP H I G AV A PEFK Y VV N + LA
Sbjct: 240 DP-----ELGKRIDKLIFPGIQGGPLEHVIAGKAVAFFEALQPEFKEYSRLVVENAKRLA 294
Query: 306 SRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVPGD-KSALVP 364
L GY++V+GG+DNHL LVDLRP G+ G E+ LD IT+NKN++P D K V
Sbjct: 295 EELARRGYRIVTGGTDNHLFLVDLRPKGLTGKEAEERLDAVGITVNKNAIPFDPKPPRVT 354
Query: 365 GGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKLVQGSKLQDFMNFVTSPNFSL 424
GIRIG+PA+TTRGF+ +E +A+ I L
Sbjct: 355 SGIRIGTPAITTRGFTPEEMPLVAELIDR----ALLEG---------------------- 388
Query: 425 MNNVADLRGRVEALTTQFPIP 445
LR V L P+P
Sbjct: 389 --PSEALREEVRRLALAHPMP 407
>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 = 571 bits (1474), Expect = 0.0
Identities = 199/442 (45%), Positives = 267/442 (60%), Gaps = 38/442 (8%)
Query: 6 PEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYID 65
E+ + + +EK RQ + +ELIASEN+TS VM+A GS LTNKY+EG PGKRYYGG EY+D
Sbjct: 16 AELWQAMEQEKVRQEEHIELIASENYTSPRVMQAQGSQLTNKYAEGYPGKRYYGGCEYVD 75
Query: 66 ELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLS 125
+E L RA F D NVQP SGS ANF VYTA+L+P D ++G++L GGHL+
Sbjct: 76 VVEQLAIDRAKELFGADY----ANVQPHSGSQANFAVYTALLQPGDTVLGMNLAQGGHLT 131
Query: 126 HGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFD 185
HG SG + +PY +DE +G +DYD + K A +PK+II G SAY D
Sbjct: 132 HG---SPVNFSG--KLYNIVPYGIDE-SGKIDYDEMAKLAKEHKPKMIIGGFSAYSGVVD 185
Query: 186 YPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFK 245
+ +MR+IAD++GA L +DMAH++GL+AA V +P + VVTTTTHK+L GPRGG+I K
Sbjct: 186 WAKMREIADSIGAYLFVDMAHVAGLIAAGVYPNPVPHAHVVTTTTHKTLAGPRGGLILAK 245
Query: 246 KDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRALA 305
EL +N+AVFP QGGP H I G AV LK A PEFKVYQ +V N +A+
Sbjct: 246 GG---DEELYKKLNSAVFPSAQGGPLMHVIAGKAVALKEAMEPEFKVYQQQVAKNAKAMV 302
Query: 306 SRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVPGD-KSALVP 364
+ GYK+VSGG++NHL L+DL + G + L A+IT+NKNSVP D KS V
Sbjct: 303 EVFLNRGYKVVSGGTENHLFLLDLVDKNLTGKEADAALGRANITVNKNSVPNDPKSPFVT 362
Query: 365 GGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKLVQGSKLQDFMNFVTSPNFSL 424
GIRIGSPA+T RGF E E +A ++ + ++ N +
Sbjct: 363 SGIRIGSPAVTRRGFKEAEVKELAGWMCDVLD------------------------NIND 398
Query: 425 MNNVADLRGRVEALTTQFPIPG 446
+ ++ +V + +FP+
Sbjct: 399 EATIERVKAKVLDICARFPVYA 420
>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 = 568 bits (1466), Expect = 0.0
Identities = 193/389 (49%), Positives = 254/389 (65%), Gaps = 16/389 (4%)
Query: 6 PEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYID 65
P+V I +E++RQ +ELIASENF SRAVMEA GS LTNKY+EG PG+RYYGG EY+D
Sbjct: 9 PQVFAAIEQERKRQHAKIELIASENFVSRAVMEAQGSVLTNKYAEGYPGRRYYGGCEYVD 68
Query: 66 ELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLS 125
+E L ++RA F + NVQP SG+ AN VY +L+ D ++G++L HGGHL+
Sbjct: 69 IVEELARERAKQLFGAEH----ANVQPHSGAQANMAVYFTVLEHGDTVLGMNLSHGGHLT 124
Query: 126 HGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFD 185
HG V+ + + + + Y +D T ++DYD + + A L RPKLI+A A+AYPR D
Sbjct: 125 HGS-----PVNFSGVQYNFVAYGVDPETHVIDYDDVREKARLHRPKLIVAAAAAYPRIID 179
Query: 186 YPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFK 245
+ + R+IAD VGA LM+DMAHI+GLVAA + +P Y VTTTTHK+LRGPRGGMI +
Sbjct: 180 FAKFREIADEVGAYLMVDMAHIAGLVAAGLHPNPVPYAHFVTTTTHKTLRGPRGGMILCQ 239
Query: 246 KDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRALA 305
+ + I+ A+FPG+QGGP H I AV A +FK Y +VV N + LA
Sbjct: 240 E------QFAKQIDKAIFPGIQGGPLMHVIAAKAVAFGEALQDDFKAYAKRVVDNAKRLA 293
Query: 306 SRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVPGD-KSALVP 364
S L G+ LVSGG+DNHL+LVDLRP + G EK+LD IT+NKN++P D +S V
Sbjct: 294 SALQNEGFTLVSGGTDNHLLLVDLRPQQLTGKTAEKVLDEVGITVNKNTIPYDPESPFVT 353
Query: 365 GGIRIGSPAMTTRGFSEKEFVAIADFIHE 393
GIRIG+ A+TTRGF +E IA I
Sbjct: 354 SGIRIGTAAVTTRGFGLEEMDEIAAIIGL 382
>3n0l_A Serine hydroxymethyltransferase; alpha beta class, 3-layer(ABA)
sandwich, CSGI transferase, structural genomics; HET:
MSE; 1.80A {Campylobacter jejuni}
Length = 417
Score = 568 bits (1467), Expect = 0.0
Identities = 188/440 (42%), Positives = 262/440 (59%), Gaps = 40/440 (9%)
Query: 6 PEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYID 65
E+ ++ KE ERQ + LE+IASENFT VME +GS LTNKY+EG PGKRYYGG E++D
Sbjct: 11 KEIFDLTNKELERQCEGLEMIASENFTLPEVMEVMGSILTNKYAEGYPGKRYYGGCEFVD 70
Query: 66 ELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLS 125
E+ETL +R FN NVQP SGS AN VY A++ P D+I+G+DL HGGHL+
Sbjct: 71 EIETLAIERCKKLFNCKF----ANVQPNSGSQANQGVYAALINPGDKILGMDLSHGGHLT 126
Query: 126 HGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFD 185
HG K SG +ES Y ++ G +DY+ + + A +PKLI+ GASAY R D
Sbjct: 127 HG---AKVSSSG--KMYESCFYGVEL-DGRIDYEKVREIAKKEKPKLIVCGASAYARVID 180
Query: 186 YPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFK 245
+ + R+IAD +GA L D+AHI+GLV A PF Y VV++TTHK+LRGPRGG+I
Sbjct: 181 FAKFREIADEIGAYLFADIAHIAGLVVAGEHPSPFPYAHVVSSTTHKTLRGPRGGIIMTN 240
Query: 246 KDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRALA 305
+ EL IN+A+FPG+QGGP H I AV K S E+KVY +V +N + LA
Sbjct: 241 DE-----ELAKKINSAIFPGIQGGPLMHVIAAKAVGFKFNLSDEWKVYAKQVRTNAQVLA 295
Query: 306 SRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVPGD-KSALVP 364
+ L++ +KLVS G+DNHLVL+ G + L A IT NKN+VPG+ +S +
Sbjct: 296 NVLMDRKFKLVSDGTDNHLVLMSFLDREFSGKDADLALGNAGITANKNTVPGEIRSPFIT 355
Query: 365 GGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKLVQGSKLQDFMNFVTSPNFSL 424
G+R+G+PA+T RGF EKE ++++I + ++ + +
Sbjct: 356 SGLRLGTPALTARGFKEKEMEIVSNYIADILD------------------------DVNN 391
Query: 425 MNNVADLRGRVEALTTQFPI 444
+++ ++ L + F I
Sbjct: 392 EKLQENIKQELKKLASNFII 411
>3ecd_A Serine hydroxymethyltransferase 2; ssgcid, decode, bupsa00008A,
one-carbon metabolism, pyridoxa phosphate, structural
genomics; 1.60A {Burkholderia pseudomallei}
Length = 425
Score = 569 bits (1468), Expect = 0.0
Identities = 202/440 (45%), Positives = 262/440 (59%), Gaps = 34/440 (7%)
Query: 6 PEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYID 65
V I KE ERQ +ELIASEN SRAV++A GS LTNKY+EG PGKRYYGG E+ D
Sbjct: 18 ASVRGAILKELERQQSQVELIASENIVSRAVLDAQGSVLTNKYAEGYPGKRYYGGCEFAD 77
Query: 66 ELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLS 125
E+E L +R FN NVQP SG+ AN V A+ KP D ++G+ L GGHL+
Sbjct: 78 EVEALAIERVKRLFNAGH----ANVQPHSGAQANGAVMLALAKPGDTVLGMSLDAGGHLT 133
Query: 126 HGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFD 185
HG K +SG +F ++ Y + T L+DYD +E A +P LIIAG SAYPR D
Sbjct: 134 HGA---KPALSG--KWFNALQYGVSRDTMLIDYDQVEALAQQHKPSLIIAGFSAYPRKLD 188
Query: 186 YPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFK 245
+ R R IAD+VGA LM+DMAHI+G++AA A+P ++ VVT+TTHK+LRGPRGG +
Sbjct: 189 FARFRAIADSVGAKLMVDMAHIAGVIAAGRHANPVEHAHVVTSTTHKTLRGPRGGFVLTN 248
Query: 246 KDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRALA 305
+ E+ IN+AVFPGLQGGP H I G AV A + +FK Y ++V++N +AL
Sbjct: 249 DE-----EIAKKINSAVFPGLQGGPLMHVIAGKAVAFGEALTDDFKTYIDRVLANAQALG 303
Query: 306 SRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVPGD-KSALVP 364
L G LV+GG+DNHL+LVDLRP G+ GA+VE+ L+ A IT NKN +P D + +
Sbjct: 304 DVLKAGGVDLVTGGTDNHLLLVDLRPKGLKGAQVEQALERAGITCNKNGIPFDPEKPTIT 363
Query: 365 GGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKLVQGSKLQDFMNFVTSPNFSL 424
GIR+G+PA TTRGF EF + I E EA +
Sbjct: 364 SGIRLGTPAGTTRGFGAAEFREVGRLILE----VFEALRTNPEGDHA------------- 406
Query: 425 MNNVADLRGRVEALTTQFPI 444
+R + AL +FPI
Sbjct: 407 --TEQRVRREIFALCERFPI 424
>3h7f_A Serine hydroxymethyltransferase 1; cytoplasm, one-carbon
metabolism, pyridoxal phosphate, structural genomics;
HET: LLP; 1.50A {Mycobacterium tuberculosis}
Length = 447
Score = 566 bits (1460), Expect = 0.0
Identities = 197/445 (44%), Positives = 265/445 (59%), Gaps = 46/445 (10%)
Query: 6 PEVCEIITKEKERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYID 65
P++ E++ KE RQ +LE+IASENF RAV++A GS LTNKY+EGLPG+RYYGG E++D
Sbjct: 31 PDIAELLAKELGRQRDTLEMIASENFVPRAVLQAQGSVLTNKYAEGLPGRRYYGGCEHVD 90
Query: 66 ELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLS 125
+E L + RA A F + NVQP SG+ AN V A++ P +R++GLDL +GGHL+
Sbjct: 91 VVENLARDRAKALFGAEF----ANVQPHSGAQANAAVLHALMSPGERLLGLDLANGGHLT 146
Query: 126 HGFMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAYPRDFD 185
HG + SG +E+ Y +D +T L+D D + TA+ FRPK+IIAG SAYPR D
Sbjct: 147 HGM---RLNFSGK--LYENGFYGVDPATHLIDMDAVRATALEFRPKVIIAGWSAYPRVLD 201
Query: 186 YPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFK 245
+ R IAD VGA L++DMAH +GLVAA + P + DVV+TT HK+L G R G+I K
Sbjct: 202 FAAFRSIADEVGAKLLVDMAHFAGLVAAGLHPSPVPHADVVSTTVHKTLGGGRSGLIVGK 261
Query: 246 KDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRALA 305
+ + AIN+AVFPG QGGP H I G AV LK A +PEF Q + +S R +A
Sbjct: 262 Q------QYAKAINSAVFPGQQGGPLMHVIAGKAVALKIAATPEFADRQRRTLSGARIIA 315
Query: 306 SRLV-----ELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNKNSVPGD-K 359
RL+ + G +VSGG+D HLVLVDLR +DG E +L IT+N+N+VP D +
Sbjct: 316 DRLMAPDVAKAGVSVVSGGTDVHLVLVDLRDSPLDGQAAEDLLHEVGITVNRNAVPNDPR 375
Query: 360 SALVPGGIRIGSPAMTTRGFSEKEFVAIADFIHEGVEITLEAKKLVQGSKLQDFMNFVTS 419
+V G+RIG+PA+ TRGF + EF +AD I +
Sbjct: 376 PPMVTSGLRIGTPALATRGFGDTEFTEVADIIATALATGSSVD----------------- 418
Query: 420 PNFSLMNNVADLRGRVEALTTQFPI 444
V+ L+ R L FP+
Sbjct: 419 --------VSALKDRATRLARAFPL 435
>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 = 70.9 bits (173), Expect = 2e-13
Identities = 56/346 (16%), Positives = 99/346 (28%), Gaps = 55/346 (15%)
Query: 16 KERQFKSLELIASENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYIDELETLCQKRA 75
+E + + L + + + + +++ + G Y G+E LE R
Sbjct: 29 QEAGYNTFLLNSKDIYIDLLTDSGTNAMSDKQWAGMMMGDEAYAGSENFYHLE-----RT 83
Query: 76 LAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMG---LDLPHGGHLSHGFMTPK 132
+ ++ + G A + +KP + G +G
Sbjct: 84 VQELFGFKHIVPTH----QGRGAENLLSQLAIKPGQYVAGNMYFTTTRYHQEKNGA---- 135
Query: 133 RRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLI----------IAGASAYPR 182
G +D L+K + I +AG
Sbjct: 136 -VFVDIVRDEAHDAGLNIAFKGDIDLKKLQKLIDEKGAENIAYICLAVTVNLAGGQPVSM 194
Query: 183 DFDYPRMRQIADAVGALLMMDMAHISG--------------LVAASVVADPFKYCDVVTT 228
+ +R++ +A G + D A +V + F Y D T
Sbjct: 195 A-NMRAVRELTEAHGIKVFYDATRCVENAYFIKEQEQGFENKSIAEIVHEMFSYADGCTM 253
Query: 229 TTHKSLRGPRGGMIFFKKDPVLGVELESAINNAVFPGL----QGGPHNHTIGGLAVCLKH 284
+ K GG + D E+ S+ V GG + +A+ L+
Sbjct: 254 SGKKDCLVNIGGFLCMNDD-----EMFSSAKELVVVYEGMPSYGGLAGRDMEAMAIGLRE 308
Query: 285 AQSPEFKVYQNKVVSNCRALASRLVELGYKLVSGGSDNHLVLVDLR 330
A E Y V R L +L G +V H V +D R
Sbjct: 309 AMQYE---YIEHRVKQVRYLGDKLKAAGVPIVE-PVGGHAVFLDAR 350
>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 = 63.9 bits (155), Expect = 6e-11
Identities = 92/497 (18%), Positives = 164/497 (32%), Gaps = 152/497 (30%)
Query: 8 VCEIITKEKERQFKSLELI----ASENFTSRAVMEAVGSCLTNKYSEGLPGKRYY---GG 60
+++ + K+ ELI + R + S L EG + GG
Sbjct: 105 AAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEG--NAQLVAIFGG 162
Query: 61 ----NEYIDELETLCQK-RALAAFNLDENKWGVNVQPLSGSPANFE-VYTAILKPHDRIM 114
++Y +EL L Q L + + + L + + E V+T
Sbjct: 163 QGNTDDYFEELRDLYQTYHVLVGDLIKFS--AETLSELIRTTLDAEKVFTQ--------- 211
Query: 115 GLDLPHGGHLSHGFMTPKRRVSGTSIYFESMPYRLDES------TGLVDYDMLEKTAILF 168
GL++ ++ Y S+P S L Y +
Sbjct: 212 GLNI-------LEWLENPSNTPDKD-YLLSIPI----SCPLIGVIQLAHY------VVTA 253
Query: 169 RPKLIIAGASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVA-----DPFKYC 223
+ + G + P + ++ GA H GLV A +A + F
Sbjct: 254 K----LLGFT--PGEL-RSYLK------GAT-----GHSQGLVTAVAIAETDSWESF--- 292
Query: 224 DVVTTTTHKSLRGPRGGMIFFKKDPVLGVE-LESAINNAVFPGLQGGPHNHTIGG----L 278
+ K++ ++FF +GV E+ N ++ P + + G L
Sbjct: 293 ---FVSVRKAIT-----VLFF-----IGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML 339
Query: 279 AVC-LKHAQSPEFKVYQNKV-VSNCRALASRLVELGYKLVSGGSDNHLVL----VDLRPM 332
++ L Q Q+ V +N A + VE+ LV+G +LV+ L
Sbjct: 340 SISNLTQEQV------QDYVNKTNSHLPAGKQVEIS--LVNG--AKNLVVSGPPQSLY-- 387
Query: 333 GIDGARVEKILDMASITLNKNSVPGDKSALVPGG--IRIGSPAMTTRGFSEKEFVAIADF 390
G++ + K A L+++ +P + L + + SP F V +D
Sbjct: 388 GLN-LTLRKA--KAPSGLDQSRIPFSERKLKFSNRFLPVASP------FHSHLLVPASDL 438
Query: 391 IHE---GVEITLEAKKL-------VQGSKLQDFMNFVTSPNFSLMNNVAD--LRGRV--E 436
I++ ++ AK + GS L+ + S+ + D +R V E
Sbjct: 439 INKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVL-------SGSISERIVDCIIRLPVKWE 491
Query: 437 ALTTQFPI-------PG 446
TTQF PG
Sbjct: 492 T-TTQFKATHILDFGPG 507
Score = 37.3 bits (86), Expect = 0.011
Identities = 43/309 (13%), Positives = 90/309 (29%), Gaps = 121/309 (39%)
Query: 114 MGLDLPHGGHLSHGFMTPK--RRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPK 171
MG+DL + T K + V + ++ G D++ P
Sbjct: 1631 MGMDL---------YKTSKAAQDV------WNRADNHFKDTYGFSILDIVIN-----NPV 1670
Query: 172 LIIAGASAYPRDFDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTH 231
+ F + ++I + M + + FK ++ +T
Sbjct: 1671 NLTI-------HFGGEKGKRIRE-----NYSAMIFETIVDGKLKTEKIFK--EINEHSTS 1716
Query: 232 KSLRGPRGGM---------IFFKKDPVLGV----ELESA---INNAVFPGLQGGPHNHTI 275
+ R +G + + ++ +L+S +A F G H++
Sbjct: 1717 YTFRSEKGLLSATQFTQPALT-----LMEKAAFEDLKSKGLIPADATFAG-------HSL 1764
Query: 276 GGLAVCLKHAQSPEFKVYQNKVVSNCRALASRLVELGYKLVSGGS---DNHLVLVDLRPM 332
G E+ + ALAS ++ + +V R
Sbjct: 1765 G------------EY--------A---ALAS----------LADVMSIESLVEVVFYR-- 1789
Query: 333 GIDGARVEKILDMASITLNKNSVPGDKSALVPGGIRIGSPAMTTRGFSEKEFVAIADFIH 392
G+ + +VP D+ G+ +P FS++ + + +
Sbjct: 1790 GM---------------TMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVG 1834
Query: 393 EG----VEI 397
+ VEI
Sbjct: 1835 KRTGWLVEI 1843
>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 = 50.6 bits (120), Expect = 6e-07
Identities = 46/269 (17%), Positives = 78/269 (28%), Gaps = 35/269 (13%)
Query: 94 SGSPANFEVYTAILKPHDRIMGLDLPHGGHLSHGFMTPKR-RVSGTSIYFESMPYRLDES 152
G A ++ +LK + P H T ++G D
Sbjct: 99 QGRGAENILFPVLLKYKQKEGKAKNPVFISNFHFDTTAAHVELNGCKAINIVTEKAFDSE 158
Query: 153 T-----GLVDYDMLEKTAILFRPKLIIA---------GASAYPRDFDYPR-MRQIADAVG 197
T G D L++ I I A P + + +IA G
Sbjct: 159 TYDDWKGDFDIKKLKE-NIAQHGADNIVAIVSTVTCNSAGGQPVSMSNLKEVYEIAKQHG 217
Query: 198 ALLMMDMAHI--------------SGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIF 243
++MD A V+ D +KY D +T + K GG++
Sbjct: 218 IFVVMDSARFCENAYFIKARDPKYKNATIKEVIFDMYKYADALTMSAKKDPLLNIGGLVA 277
Query: 244 FKKDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRA 303
+ + + GG + + L+ E Y + + +
Sbjct: 278 IRDNEEIFTLARQRCVPMEGFVTYGGLAGRDMAAMVQGLEEGTEEE---YLHYRIGQVKY 334
Query: 304 LASRLVELGYKLVSGGSDNHLVLVDLRPM 332
L RL E G + + H V VD + +
Sbjct: 335 LGDRLREAGIPIQY-PTGGHAVFVDCKKL 362
>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 = 50.6 bits (120), Expect = 8e-07
Identities = 57/404 (14%), Positives = 114/404 (28%), Gaps = 123/404 (30%)
Query: 7 EVCEIITKEKERQFKSLELIAS-ENFTSRAVMEAVGSCLTNKYSEGLPGKRYYGGNEYI- 64
E + I K+ +L L + + V + V L Y +++
Sbjct: 49 EEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY-------------KFLM 95
Query: 65 DELETLCQKRAL--AAFNLDENKWGVNVQPLSGSPAN---FEVYTAI------LKPHDRI 113
++T ++ ++ + ++ + Q + N + Y + L+P +
Sbjct: 96 SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFA--KYNVSRLQPYLKLRQALLELRPAKNV 153
Query: 114 ----MG------------LDLPHGGHLSHG-F-MTPKRRVSGTSI--YFESMPYRLDES- 152
+ L + F + K S ++ + + Y++D +
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW 213
Query: 153 TGLVDYDMLEKTAILFRPKLIIAGASAYPRDF----DYPRMRQIADAVGALLMMDMAHIS 208
T D+ KL I A R Y LL++ +
Sbjct: 214 TSRSDHS--------SNIKLRIHSIQAELRRLLKSKPYEN---------CLLVLL--N-- 252
Query: 209 GLVAASVVADPFKY-CDVVTTT--------------THKSLRGPRGGMIFFKKDPVLGVE 253
V + + F C ++ TT TH SL D V +
Sbjct: 253 --VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMT---LTPDEVKSL- 306
Query: 254 LESAINNAVF--P--GLQGGPHNHTIGGLAVCLKHAQSPEFKV-YQNKVVSNCRALASRL 308
L ++ P L P + + + + N NC L + +
Sbjct: 307 LLKYLDCRPQDLPREVLTTNP-------RRLSIIAESIRDGLATWDNWKHVNCDKL-TTI 358
Query: 309 VELGYKLVSGGSDNHLVLVDLRPM----GI--DGARV-EKILDM 345
+E N L + R M + A + +L +
Sbjct: 359 IESSL--------NVLEPAEYRKMFDRLSVFPPSAHIPTILLSL 394
>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 = 38.1 bits (88), Expect = 0.005
Identities = 45/278 (16%), Positives = 79/278 (28%), Gaps = 50/278 (17%)
Query: 94 SGSPANFEVYTAILKPHDRIMGLDLPHGGHLSHGFMTPKR---RVSGTSIYFESMPYRLD 150
G A ++K ++ GLD S+ F + +++G ++ + D
Sbjct: 97 QGRGAEQIYIPVLIKKREQEKGLDRSKMVAFSNYFFDTTQGHSQINGCTVRNVYIKEAFD 156
Query: 151 EST-----GLVDYDMLEKTAI----LFRPKLII-------AGASAYPRDFDYPR-MRQIA 193
G D + LE+ I I+ AG + M IA
Sbjct: 157 TGVRYDFKGNFDLEGLER-GIEEVGPNNVPYIVATITSNSAGGQPVS--LANLKAMYSIA 213
Query: 194 DAVGALLMMDMAHI--------------SGLVAASVVADPFKYCDVVTTTTHKSLRGPRG 239
++MD A + + +KY D++ + K P G
Sbjct: 214 KKYDIPVVMDSARFAENAYFIKQREAEYKDWTIEQITRETYKYADMLAMSAKKDAMVPMG 273
Query: 240 GMIFFKKDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKV-----YQ 294
G++ K D + T GGL + +
Sbjct: 274 GLLCMKDDSFF------DVYTECRTLCVVQEGFPTYGGLEGGAMERLAVGLYDGMNLDWL 327
Query: 295 NKVVSNCRALASRLVELGYKLVSGGSDNHLVLVDLRPM 332
++ + L L E+G G H VD +
Sbjct: 328 AYRIAQVQYLVDGLEEIGVVCQQAGG--HAAFVDAGKL 363
>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 = 37.3 bits (86), Expect = 0.008
Identities = 37/224 (16%), Positives = 71/224 (31%), Gaps = 30/224 (13%)
Query: 143 ESMPYRLDESTGLVDYDMLEKTAILFRPK----LIIAGASAYP-RDFD-YPRMRQIADAV 196
+ LD V + +E +++ + +P R+ D + +I +
Sbjct: 201 RLVETVLDGDRVYVPVEDIENAIKKEIELGNRPCVLSTLTFFPPRNSDDIVEIAKICENY 260
Query: 197 GALLMMDMAH-ISGLVAASVVADPFKY-CDVVTTTTHKSLRGPRGGMIFFKKDPVLGVEL 254
+++ A+ I + FKY D V +++ K+L P GG + + D
Sbjct: 261 DIPHIINGAYAIQNNYYLEKLKKAFKYRVDAVVSSSDKNLLTPIGGGLVYSTDA------ 314
Query: 255 ESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRALASRLVELGYK 314
+ G + V L S + ++ + L L +L K
Sbjct: 315 --EFIKEISLSYPGRASATPVVNTLVSLLSMGSKNYLELVKNQKNSKKLLDELLNDLSKK 372
Query: 315 --------------LVSGGSDNHLVLVDLRPMGIDGARVEKILD 344
+S SD + L + + G R K D
Sbjct: 373 TGGKFLDVESPIASCISVNSDPVEIAAKLYNLRVTGPRGIKKTD 416
>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 = 36.4 bits (85), Expect = 0.015
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 10/61 (16%)
Query: 150 DESTGLVDYDMLEKTAILFRPKLII----AGASAYPRDFDYPRMRQIADAVGALLMMDMA 205
D T +V + +E AI + K II AGA A D + + + G ++ D A
Sbjct: 109 DRDTLMVTPEHIEA-AITPQTKAIIPVHYAGAPA-----DLDAIYALGERYGIPVIEDAA 162
Query: 206 H 206
H
Sbjct: 163 H 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 = 35.5 bits (82), Expect = 0.032
Identities = 16/61 (26%), Positives = 24/61 (39%), Gaps = 3/61 (4%)
Query: 184 FDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIF 243
D + ++ GAL + D+AH +G V + D T+K L G G F
Sbjct: 182 HDMQALTALSHECGALAIWDLAHSAGAVPVDLHQAG---ADYAIGCTYKYLNGGPGSQAF 238
Query: 244 F 244
Sbjct: 239 V 239
>2vyc_A Biodegradative arginine decarboxylase; pyridoxal phosphate,
PLP-dependent E lyase, acid resistance; HET: LLP; 2.4A
{Escherichia coli}
Length = 755
Score = 35.5 bits (81), Expect = 0.036
Identities = 40/275 (14%), Positives = 70/275 (25%), Gaps = 38/275 (13%)
Query: 72 QKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLS--HG-- 127
+K A F D + V S +N + A + +D ++ + H S G
Sbjct: 211 EKYAARVFGADRSWSVVV----GTSGSNRTIMQACMTDNDVVV---VDRNCHKSIEQGLM 263
Query: 128 -------FMTPKRRVSGTSIYFESMPYRLDEST--GLVDYDMLEKTAILFRPKLIIAGAS 178
+M P R + I P + T + L K +P +
Sbjct: 264 LTGAKPVYMVPSR--NRYGIIGPIYPQEMQPETLQKKISESPLTKDKAGQKPSYCVVTNC 321
Query: 179 AYPRD---FDYPRMRQIADAVGALLMMDMAHISGLV----------AASVVADPFKYCDV 225
Y D ++ + + + L D A D
Sbjct: 322 TY--DGVCYNAKEAQDLLEKTSDRLHFDEAWYGYARFNPIYADHYAMRGEPGDHNGPTVF 379
Query: 226 VTTTTHKSLRGPRGGMIFFKKDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHA 285
T +THK L ++ + N A P V +
Sbjct: 380 ATHSTHKLLNALSQASYIHVREGRGAINFS-RFNQAYMMHATTSPLYAICASNDVAVSMM 438
Query: 286 QSPEFKVYQNKVVSNCRALASRLVELGYKLVSGGS 320
+V+ + L + + GS
Sbjct: 439 DGNSGLSLTQEVIDEAVDFRQAMARLYKEFTADGS 473
>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 = 34.6 bits (79), Expect = 0.067
Identities = 34/258 (13%), Positives = 57/258 (22%), Gaps = 34/258 (13%)
Query: 72 QKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLS--HG-- 127
++ FN D + N S AN V I+ + H S H
Sbjct: 201 EQYIARVFNADRSYMVTN----GTSTANKIVGMYSAPAGSTIL---IDRNCHKSLTHLMM 253
Query: 128 -------FMTPKRRVSGTSIYFESMPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAY 180
+ P R + I E +++T P + S Y
Sbjct: 254 MSDVTPIYFRPTR--NAYGIL---GGIPQSEFQHATIAKRVKETPNATWPVHAVITNSTY 308
Query: 181 PR-DFDYPRMRQIADAVGALLMMDMAHISGLV------AASVVADPFKYCDVVTTTTHKS 233
++ +++ D + T +THK
Sbjct: 309 DGLLYNTDFIKKTLDVKSIHFDSAWVPYTNFSPIYEGKCGMSGGRVEGKVIYETQSTHKL 368
Query: 234 LRGPRGGMIFFKKDPVLGVELESAINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVY 293
L + K V A PH + + K
Sbjct: 369 LAAFSQASMIHVKGDVNEETFNEAYMMHT----TTSPHYGIVASTETAAAMMKGNAGKRL 424
Query: 294 QNKVVSNCRALASRLVEL 311
N + + L
Sbjct: 425 INGSIERAIKFRKEIKRL 442
>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 = 32.8 bits (75), Expect = 0.22
Identities = 28/149 (18%), Positives = 54/149 (36%), Gaps = 11/149 (7%)
Query: 191 QIADAVGALLMMDMAHISGLVAASVVA-DPFKYCDVVTTTTHKSLRGPRG--GMIFFKKD 247
++ L+++ A+ G + S+ D + + HKS+ G G++ K++
Sbjct: 171 KVCSEYDVPLLVNGAYAIGRMPVSLKEIG----ADFIVGSGHKSM-AASGPIGVMGMKEE 225
Query: 248 PVLGVELESAINNAVFPGLQGG-PHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRALAS 306
V S L G TI L H + E ++ V R A+
Sbjct: 226 WAEIVLRRSEKYKNKEVELLGCTARGATIITLMASFPHVR--ERIKRWDEEVEKARRFAA 283
Query: 307 RLVELGYKLVSGGSDNHLVLVDLRPMGID 335
+ +LG K + NH ++ + +
Sbjct: 284 EMEKLGIKQLGDNPHNHDLMFFHAEVLYE 312
>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 = 31.9 bits (72), Expect = 0.50
Identities = 13/61 (21%), Positives = 23/61 (37%), Gaps = 3/61 (4%)
Query: 184 FDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIF 243
F+ P + + A G + D+AH G V + + ++K L GG+
Sbjct: 231 FNIPAITKAGQAKGCYVGFDLAHAVGNVELYLHDWGVDFA---CWCSYKYLNAGAGGIAG 287
Query: 244 F 244
Sbjct: 288 A 288
>3fed_A Glutamate carboxypeptidase III; metallopeptidase, bimetallic active
site, N-glycosylation, C cation, chloride anion, zinc
IONS, dipept glycoprotein; HET: NAG BIX; 1.29A {Homo
sapiens} PDB: 3fec_A* 3fee_A* 3ff3_A* 2c6c_A* 2c6g_A*
2c6p_A* 2cij_A* 2jbj_A* 2jbk_A* 3rbu_A* 3bi1_A* 2oot_A*
2pvv_A* 2pvw_A* 2xei_A* 2or4_A* 3bi0_A* 3bhx_A* 3d7d_A*
3d7f_A* ...
Length = 707
Score = 31.5 bits (70), Expect = 0.67
Identities = 11/55 (20%), Positives = 24/55 (43%)
Query: 57 YYGGNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHD 111
G E+ +E + Q+R++A N D + G + +P +++ + K
Sbjct: 385 LLGSTEWAEENVKILQERSIAYINSDSSIEGNYTLRVDCTPLLYQLVYKLTKEIP 439
>3bc8_A O-phosphoseryl-tRNA(SEC) selenium transferase; disorder-order
transition, phosphate-loop, pyridoxal phospha
selenocysteine synthase (SECS, sepsecs); HET: LLP; 1.65A
{Mus musculus} SCOP: c.67.1.9 PDB: 3bca_A* 3bcb_A*
Length = 450
Score = 31.1 bits (70), Expect = 0.74
Identities = 24/178 (13%), Positives = 49/178 (27%), Gaps = 16/178 (8%)
Query: 145 MPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAY----PRDFD-YPRMRQIADAVGAL 199
+ L+ D +E P+ I+ S PR D + I
Sbjct: 171 IENVLEGDELRTDLKAVEAKIQELGPEHILCLHSTTACFAPRVPDRLEELAVICANYDIP 230
Query: 200 LMMDMA---HISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFKKDPVLGVELES 256
+++ A S + D + K+ P GG I + ++
Sbjct: 231 HVVNNAYGLQSSKCMHLIQQGARVGRIDAFVQSLDKNFMVPVGGAIIAGFNEPFIQDISK 290
Query: 257 AINNAVFPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRALASRLVELGYK 314
+PG + + L ++ + L+++L +L
Sbjct: 291 M-----YPGRASA---SPSLDVLITLLSLGCSGYRKLLKERKEMFVYLSTQLKKLAEA 340
>2x3l_A ORN/Lys/Arg decarboxylase family protein; lyase; HET: LLP; 2.00A
{Staphylococcus aureus}
Length = 446
Score = 30.9 bits (70), Expect = 0.87
Identities = 26/172 (15%), Positives = 62/172 (36%), Gaps = 15/172 (8%)
Query: 184 FDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKY-CDVVTTTTHKSLRGPR-GGM 241
F+ + + + +++D AH + Y D V + HK+L G +
Sbjct: 162 FNVEEVIKSLHQLNIPVLIDEAHGAHFGLQGFPDSTLNYQADYVVQSFHKTLPALTMGSV 221
Query: 242 IFFKKDPVLGVELESAINNAVFPGLQG-GPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSN 300
++ K+ + ++ Q P + L + ++ + ++ K
Sbjct: 222 LYIHKNAPYRENIIEYLS-----YFQTSSPSYLIMASLESAAQFYKTYDSTLFFAKRAQL 276
Query: 301 CRALASRLVELGYKLVSGGSDNHLVLVDLRPMGIDGARVEKILDMASITLNK 352
L ++ G++++ D+ L L+ ++ G G ++ A I L
Sbjct: 277 IECLENK----GFEML--QVDDPLKLL-IKYEGFTGHDIQNWFMNAHIYLEL 321
>2aeu_A Hypothetical protein MJ0158; selenocysteine synthase, PLP,
pyridoxal phosphate, HOMO- oligomerization, unknown
function; 1.70A {Methanocaldococcus jannaschii} SCOP:
c.67.1.8 PDB: 2aev_A*
Length = 374
Score = 30.2 bits (68), Expect = 1.3
Identities = 17/64 (26%), Positives = 32/64 (50%), Gaps = 1/64 (1%)
Query: 185 DYPRMRQIADAVGALLMMDMAHISGLVAASVVADPFKY-CDVVTTTTHKSLRGPRGGMIF 243
++ ++ A A++ +D A + + K D+V T+T K + GPRGG++
Sbjct: 160 NFKKVINTAKNKEAIVFVDDASGARVRLLFNQPPALKLGADLVVTSTDKLMEGPRGGLLA 219
Query: 244 FKKD 247
KK+
Sbjct: 220 GKKE 223
>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 = 30.4 bits (68), Expect = 1.3
Identities = 35/270 (12%), Positives = 75/270 (27%), Gaps = 38/270 (14%)
Query: 72 QKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILKPHDRIMGLDLPHGGHLS--HG-- 127
+K A +N D+ + + S AN V +A++ D ++ H S +
Sbjct: 179 EKHAARVYNADKTYFVLG----GSSNANNTVTSALVSNGDLVL---FDRNNHKSVYNSAL 231
Query: 128 --------FMTPKRRVSGTSIYFESMPYRLDEST--GLVDYDMLEKTAILFRPKLIIAGA 177
++ R + DE L E+ +L +
Sbjct: 232 AMAGGRPVYLQTNR--NPYGFIGGIYDSDFDEKKIRELAAKVDPERAKWKRPFRLAVIQL 289
Query: 178 SAYPRD-FDYPRMRQIADAVGALLMMDMAHISGLVAASVVADPF----------KYCDVV 226
Y ++ + + + + D A + ++ + +V
Sbjct: 290 GTYDGTIYNAHEVVKRIGHLCDYIEFDSAWVGYEQFIPMMRNSSPLLIDDLGPEDPGIIV 349
Query: 227 TTTTHKSLRGPRGGMIFFKKDPVLGVELESAINNAV---FPGLQG-GPHNHTIGGLAVCL 282
+ HK G KKD + +L + F P L V
Sbjct: 350 VQSVHKQQAGFSQTSQIHKKDSHIKGQLRYCDHKHFNNSFNLFMSTSPFYPMYAALDVNA 409
Query: 283 KHAQSPEFKVYQNKVVSNCRALASRLVELG 312
+ + + ++ +L++ G
Sbjct: 410 AMQEGEAGRKLWHDLLITTIEARKKLIKAG 439
>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 = 30.3 bits (69), Expect = 1.4
Identities = 20/130 (15%), Positives = 37/130 (28%), Gaps = 38/130 (29%)
Query: 94 SGSPANFEVYTAILKPHDRIMGLDLPH-----GGHLSHGFMTPKRRVSGTSIYFESMPYR 148
SG AN + I +P+ + H G ++ + +
Sbjct: 127 SGWNANVGLLQTICQPNTNVYIDFFAHMSLWEGARYANA----QAHP-----------FM 171
Query: 149 LDESTGLVDYDMLEKTAILFRPKLIIA-------GASAYPRDFDYPRMRQIADAVGALLM 201
+ + D L P +I+ G A + I+ G L+
Sbjct: 172 HN------NCDHLRMLIQRHGPGIIVVDSIYSTLGTIA-----PLAELVNISKEFGCALL 220
Query: 202 MDMAHISGLV 211
+D +H G
Sbjct: 221 VDESHSLGTH 230
>3tqx_A 2-amino-3-ketobutyrate coenzyme A ligase; energy metabolism,
transferase; HET: PLP; 2.30A {Coxiella burnetii}
Length = 399
Score = 29.9 bits (68), Expect = 2.0
Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 11/64 (17%)
Query: 187 PRMRQIADAVGALLMMDMAHIS--------GLVAASVVADPFKYCDVVTTTTHKSLRGPR 238
+ +AD AL+M+D +H G VAD D++T T K+L G
Sbjct: 195 KSICDLADKYNALVMVDDSHAVGFIGENGRGTPEYCGVADR---VDILTGTLGKALGGAS 251
Query: 239 GGMI 242
GG
Sbjct: 252 GGYT 255
>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 = 29.5 bits (67), Expect = 2.2
Identities = 17/64 (26%), Positives = 25/64 (39%), Gaps = 11/64 (17%)
Query: 187 PRMRQIADAVGALLMMDMAHISG--------LVAASVVADPFKYCDVVTTTTHKSLRGPR 238
+ +AD AL+M+D +H G V D++T T K+L G
Sbjct: 197 KGVCDLADKYDALVMVDDSHAVGFVGENGRGSHEYCDVMGR---VDIITGTLGKALGGAS 253
Query: 239 GGMI 242
GG
Sbjct: 254 GGYT 257
>3hl2_A O-phosphoseryl-tRNA(SEC) selenium transferase; selenocysteine,
sepsecs, protein-RNA complex, alternative splicing,
cytoplasm, protein biosynthesis, pyridoxal phosphate,
selenium; HET: PLR SEP; 2.81A {Homo sapiens}
Length = 501
Score = 29.3 bits (65), Expect = 3.0
Identities = 18/114 (15%), Positives = 30/114 (26%), Gaps = 8/114 (7%)
Query: 145 MPYRLDESTGLVDYDMLEKTAILFRPKLIIAGASAY----PRDFD-YPRMRQIADAVGAL 199
+ L+ D +E P I+ S PR D + I
Sbjct: 189 IENVLEGDELRTDLKAVEAKVQELGPDCILCIHSTTSCFAPRVPDRLEELAVICANYDIP 248
Query: 200 LMMDMA---HISGLVAASVVADPFKYCDVVTTTTHKSLRGPRGGMIFFKKDPVL 250
+++ A S + D + K+ P GG I +
Sbjct: 249 HIVNNAYGVQSSKCMHLIQQGARVGRIDAFVQSLDKNFMVPVGGAIIAGFNDSF 302
>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 = 27.6 bits (60), Expect = 6.2
Identities = 10/31 (32%), Positives = 15/31 (48%), Gaps = 8/31 (25%)
Query: 15 EKERQFK----SLELIASEN---FTSRAVME 38
EK+ K SL+L A ++ +A ME
Sbjct: 18 EKQ-ALKKLQASLKLYADDSAPALAIKATME 47
>1af7_A Chemotaxis receptor methyltransferase CHER; chemotaxis receptor
methylation; HET: SAH; 2.00A {Salmonella typhimurium}
SCOP: a.58.1.1 c.66.1.8 PDB: 1bc5_A*
Length = 274
Score = 27.9 bits (63), Expect = 6.2
Identities = 15/71 (21%), Positives = 28/71 (39%), Gaps = 10/71 (14%)
Query: 379 FSEKEFVAIADFIHEGVEITLEAKK--LVQGSKLQDFMNFVTSPNFS-LMNNVADLRGRV 435
S+ F I I++ I L K +V ++L + + +F ++ + +
Sbjct: 12 LSDAHFRRICQLIYQRAGIVLADHKRDMVY-NRLVRRLRALGLDDFGRYLSMLEANQNSA 70
Query: 436 E------ALTT 440
E ALTT
Sbjct: 71 EWQAFINALTT 81
>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 = 28.0 bits (63), Expect = 7.9
Identities = 41/178 (23%), Positives = 66/178 (37%), Gaps = 24/178 (13%)
Query: 157 DYDMLE---KTAILFRPKLIIAGASAYPRDFDYPRMRQI---ADAVGALLMMDMAHISGL 210
D L PKLI A S Y D D+ +++I A+ GAL +D H G+
Sbjct: 163 DVAHLRELIAADDPAAPKLI-AFESVYSMDGDFGPIKEICDIAEEFGALTYIDEVHAVGM 221
Query: 211 VAASV--VADPFKY---CDVVTTTTHKSLRGPRGGMIFFKKDPVLGVELESA---INNAV 262
VA+ D+ T K+ G GG I V V + + ++
Sbjct: 222 YGPRGAGVAERDGLMHRIDIFNGTLAKAY-GVFGGYIAASARMVDAVRSYAPGFIFSTSL 280
Query: 263 FPGLQGGPHNHTIGGLAVCLKHAQSPEFKVYQNKVVSNCRALASRLVELGYKLVSGGS 320
P + G A + ++ E + ++ + + L RL LG ++ GS
Sbjct: 281 PPAIAA-------GAQAS-IAFLKTAEGQKLRDAQQMHAKVLKMRLKALGMPIIDHGS 330
>3kas_A Transferrin receptor protein 1; transferrin receptor 1, arenavirus,
cell MEMB disulfide bond, endocytosis, HOST-virus inter
receptor, secreted, transmembrane; HET: NAG FUC BMA MAN;
2.40A {Homo sapiens} PDB: 1de4_C* 3s9l_A* 3s9m_A*
3s9n_A* 1cx8_A* 1suv_A 2nsu_A
Length = 640
Score = 27.8 bits (61), Expect = 8.4
Identities = 10/50 (20%), Positives = 22/50 (44%)
Query: 59 GGNEYIDELETLCQKRALAAFNLDENKWGVNVQPLSGSPANFEVYTAILK 108
G E+++ + +A NLD+ G + +S SP + + ++
Sbjct: 342 GATEWLEGYLSSLHLKAFTYINLDKAVLGTSNFKVSASPLLYTLIEKTMQ 391
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 0.137 0.400
Gapped
Lambda K H
0.267 0.0770 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,986,641
Number of extensions: 437872
Number of successful extensions: 1029
Number of sequences better than 10.0: 1
Number of HSP's gapped: 989
Number of HSP's successfully gapped: 42
Length of query: 447
Length of database: 6,701,793
Length adjustment: 97
Effective length of query: 350
Effective length of database: 3,993,456
Effective search space: 1397709600
Effective search space used: 1397709600
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)