RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 012104
(471 letters)
>gnl|CDD|215639 PLN03226, PLN03226, serine hydroxymethyltransferase; Provisional.
Length = 475
Score = 1005 bits (2601), Expect = 0.0
Identities = 365/474 (77%), Positives = 410/474 (86%), Gaps = 5/474 (1%)
Query: 1 MDPVNEWGNSSLETVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIEALGSALTNKYS 60
M V +WGN+ LE VDPEI D+IEKEKRRQ +G+ELIASENFTS AV+EALGS LTNKYS
Sbjct: 4 MVSVPKWGNAPLEEVDPEIADIIEKEKRRQWKGLELIASENFTSRAVMEALGSCLTNKYS 63
Query: 61 EGMPGNRYYGGNEFIDEIENLCRSRALQTFHLDPTQWGVNVQPYSGSPANFAAYTAVLEP 120
EG+PG RYYGGNE+ID+IE LC+ RAL+ F LDP +WGVNVQP SGSPANFA YTA+L+P
Sbjct: 64 EGLPGARYYGGNEYIDQIETLCQKRALEAFRLDPEKWGVNVQPLSGSPANFAVYTALLQP 123
Query: 121 HDRIMGLDLPSGGHLTHGYYTSGGKKISATSIYFESLPYKVNSSTGYIDYDKLEEKALDF 180
HDRIMGLDLP GGHL+HGY T G KKISATSIYFES+PY+++ STG IDYDKLE+KA+ F
Sbjct: 124 HDRIMGLDLPHGGHLSHGYQTDG-KKISATSIYFESMPYRLDESTGLIDYDKLEKKAMLF 182
Query: 181 RPKLIICGGSAYPRDWDYARFRAVADKCGALLLCDMAHISGLVAAQEAANPFEYCHIVTT 240
RPKLII G SAYPRDWDYAR R +ADK GALL+CDMAHISGLVAAQEAA+PFEYC +VTT
Sbjct: 183 RPKLIIAGASAYPRDWDYARMRKIADKVGALLMCDMAHISGLVAAQEAASPFEYCDVVTT 242
Query: 241 TTHKSLRGPRAGMIFYRKGPKPPKKGQPEGAVYDFEDKINFAVFPSLQGGPHNHQIGALA 300
TTHKSLRGPR GMIF+RKGPKPPK EGAVYD+EDKINFAVFP LQGGPHNH I ALA
Sbjct: 243 TTHKSLRGPRGGMIFFRKGPKPPKGQG-EGAVYDYEDKINFAVFPGLQGGPHNHTIAALA 301
Query: 301 VALKQASTPAFKAYAKQVKANAVALGNYLTGKGYSLVTGGTENHLVLWDLRPLGLTGNKV 360
VALKQA TP FKAY KQVKANA AL N L KGY LVTGGT+NHLVLWDLRPLGLTG++V
Sbjct: 302 VALKQAMTPEFKAYQKQVKANAAALANRLMSKGYKLVTGGTDNHLVLWDLRPLGLTGSRV 361
Query: 361 EKLCDLCNITVNKNAVFGDSSALAPGGVRIGTPAMTSRGLLEKDFEQIGEFLHRAVTLTL 420
EK+ DL +IT+NKNAV GDSSAL PGGVRIGTPAMTSRGL+EKDFE++ EFLHRAVT+ L
Sbjct: 362 EKVLDLAHITLNKNAVPGDSSALVPGGVRIGTPAMTSRGLVEKDFEKVAEFLHRAVTIAL 421
Query: 421 EIQKEYGKLLKDFNKGLVNN---KDIEALKADVEKFASSFDMPGFKMSEMKYKD 471
+IQKE+GK LKDF KGL +N KDIEAL+A+VE+FA+SF MPGF MKYK+
Sbjct: 422 KIQKEHGKKLKDFKKGLESNDFSKDIEALRAEVEEFATSFPMPGFDKESMKYKE 475
>gnl|CDD|240264 PTZ00094, PTZ00094, serine hydroxymethyltransferase; Provisional.
Length = 452
Score = 809 bits (2091), Expect = 0.0
Identities = 296/455 (65%), Positives = 346/455 (76%), Gaps = 13/455 (2%)
Query: 8 GNSSLETVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIEALGSALTNKYSEGMPGNR 67
N SL+ DPE+++LIEKEK RQ G+ELIASENFTS AV+E LGS TNKY+EG+PGNR
Sbjct: 11 LNQSLKEADPELYELIEKEKERQIEGLELIASENFTSRAVLECLGSCFTNKYAEGLPGNR 70
Query: 68 YYGGNEFIDEIENLCRSRALQTFHLDPTQWGVNVQPYSGSPANFAAYTAVLEPHDRIMGL 127
YYGGNE +D+IENLC+ RAL+ F LDP +WGVNVQPYSGSPANFA YTA+L+PHDRIMGL
Sbjct: 71 YYGGNEVVDKIENLCQKRALEAFGLDPEEWGVNVQPYSGSPANFAVYTALLQPHDRIMGL 130
Query: 128 DLPSGGHLTHGYYTSGGKKISATSIYFESLPYKVNSSTGYIDYDKLEEKALDFRPKLIIC 187
DLPSGGHLTHG+YT KK+SATSIYFESLPY+VN G IDYDKLEE A FRPKLII
Sbjct: 131 DLPSGGHLTHGFYT-AKKKVSATSIYFESLPYQVNE-KGLIDYDKLEELAKAFRPKLIIA 188
Query: 188 GGSAYPRDWDYARFRAVADKCGALLLCDMAHISGLVAAQEAANPFEYCHIVTTTTHKSLR 247
G SAYPRD DY RFR + D GA L+ D+AH SGLVAA +PF Y +VTTTTHKSLR
Sbjct: 189 GASAYPRDIDYKRFREICDSVGAYLMADIAHTSGLVAAGVLPSPFPYADVVTTTTHKSLR 248
Query: 248 GPRAGMIFYRKGPKPPKKGQPEGAVYDFEDKINFAVFPSLQGGPHNHQIGALAVALKQAS 307
GPR+G+IFYRK KP D E+KIN AVFP LQGGPHNHQI A+AV LK+
Sbjct: 249 GPRSGLIFYRKKVKP-----------DIENKINEAVFPGLQGGPHNHQIAAIAVQLKEVQ 297
Query: 308 TPAFKAYAKQVKANAVALGNYLTGKGYSLVTGGTENHLVLWDLRPLGLTGNKVEKLCDLC 367
+P +K YAKQV NA AL L +GY LVTGGT+NHLVL DLRP G+TG+K+EKL D
Sbjct: 298 SPEWKEYAKQVLKNAKALAAALEKRGYDLVTGGTDNHLVLVDLRPFGITGSKMEKLLDAV 357
Query: 368 NITVNKNAVFGDSSALAPGGVRIGTPAMTSRGLLEKDFEQIGEFLHRAVTLTLEIQKEYG 427
NI+VNKN + GD SAL P GVR+GTPA+T+RG EKDF+ + +FL RAV L EIQK+ G
Sbjct: 358 NISVNKNTIPGDKSALNPSGVRLGTPALTTRGAKEKDFKFVADFLDRAVKLAQEIQKQVG 417
Query: 428 KLLKDFNKGLVNNKDIEALKADVEKFASSFDMPGF 462
K L DF K L N +++ L+ +V +FAS F PG
Sbjct: 418 KKLVDFKKALEKNPELQKLRQEVVEFASQFPFPGI 452
>gnl|CDD|215153 PLN02271, PLN02271, serine hydroxymethyltransferase.
Length = 586
Score = 785 bits (2029), Expect = 0.0
Identities = 316/466 (67%), Positives = 373/466 (80%), Gaps = 5/466 (1%)
Query: 4 VNEWGNSSLETVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIEALGSALTNKYSEGM 63
V WGN L DP+IH+L+EKEK+RQ +GIELIASENF AV+EALGS LTNKYSEGM
Sbjct: 121 VRAWGNQPLPEADPDIHELMEKEKQRQFKGIELIASENFVCRAVMEALGSHLTNKYSEGM 180
Query: 64 PGNRYYGGNEFIDEIENLCRSRALQTFHLDPTQWGVNVQPYSGSPANFAAYTAVLEPHDR 123
PG RYY GN++ID+IE LC RAL F LD +WGVNVQPYS + ANFA YT +L P DR
Sbjct: 181 PGARYYTGNQYIDQIERLCCERALAAFGLDSEKWGVNVQPYSCTSANFAVYTGLLLPGDR 240
Query: 124 IMGLDLPSGGHLTHGYYTSGGKKISATSIYFESLPYKVNSSTGYIDYDKLEEKALDFRPK 183
IMGLD PSGGH++HGYYT GGKK+S SI+FESLPYKVN TGYIDYDKLEEKALDFRPK
Sbjct: 241 IMGLDSPSGGHMSHGYYTPGGKKVSGASIFFESLPYKVNPQTGYIDYDKLEEKALDFRPK 300
Query: 184 LIICGGSAYPRDWDYARFRAVADKCGALLLCDMAHISGLVAAQEAANPFEYCHIVTTTTH 243
++ICGGS+YPR+WDYARFR +ADKCGA+L+CDMAHISGLVAA+E NPF+YC IVT+TTH
Sbjct: 301 ILICGGSSYPREWDYARFRQIADKCGAVLMCDMAHISGLVAAKECVNPFDYCDIVTSTTH 360
Query: 244 KSLRGPRAGMIFYRKGPKPPKKGQ-----PEGAVYDFEDKINFAVFPSLQGGPHNHQIGA 298
KSLRGPR G+IFYRKGPK K+G + + YDFE+KINFAVFPSLQGGPHN+ I A
Sbjct: 361 KSLRGPRGGIIFYRKGPKLRKQGMLLSHGDDNSHYDFEEKINFAVFPSLQGGPHNNHIAA 420
Query: 299 LAVALKQASTPAFKAYAKQVKANAVALGNYLTGKGYSLVTGGTENHLVLWDLRPLGLTGN 358
LA+ALKQ +TP +KAY +QVK NA AL + L + LVTGGT+NHL+LWDL LGLTG
Sbjct: 421 LAIALKQVATPEYKAYMQQVKKNAQALASALLRRKCRLVTGGTDNHLLLWDLTTLGLTGK 480
Query: 359 KVEKLCDLCNITVNKNAVFGDSSALAPGGVRIGTPAMTSRGLLEKDFEQIGEFLHRAVTL 418
EK+C++C+IT+NK A+FGD+ ++PGGVRIGTPAMTSRG LE DFE I +FL RA +
Sbjct: 481 NYEKVCEMCHITLNKTAIFGDNGTISPGGVRIGTPAMTSRGCLESDFETIADFLLRAAQI 540
Query: 419 TLEIQKEYGKLLKDFNKGLVNNKDIEALKADVEKFASSFDMPGFKM 464
+Q+E+GKL K+F KGL NNKDI L+ VE FAS F MPGF +
Sbjct: 541 ASAVQREHGKLQKEFLKGLQNNKDIVELRNRVEAFASQFAMPGFDV 586
>gnl|CDD|189558 pfam00464, SHMT, Serine hydroxymethyltransferase.
Length = 380
Score = 627 bits (1619), Expect = 0.0
Identities = 237/402 (58%), Positives = 281/402 (69%), Gaps = 23/402 (5%)
Query: 12 LETVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIEALGSALTNKYSEGMPGNRYYGG 71
L DPEI D+I+KEK RQ GIELIASENFTS AV+EALGS LTNKY+EG PG RYYGG
Sbjct: 1 LSDSDPEIFDIIKKEKERQREGIELIASENFTSRAVMEALGSVLTNKYAEGYPGKRYYGG 60
Query: 72 NEFIDEIENLCRSRALQTFHLDPTQWGVNVQPYSGSPANFAAYTAVLEPHDRIMGLDLPS 131
E++DE+E L + RA + F LD GVNVQP SGS AN A YTA+L P DRIMGLDLP
Sbjct: 61 CEYVDEVETLAQDRAKELFGLD----GVNVQPLSGSQANLAVYTALLNPGDRIMGLDLPH 116
Query: 132 GGHLTHGYYTSGGKKISATSIYFESLPYKVNSSTGYIDYDKLEEKALDFRPKLIICGGSA 191
GGHLTHGY ++ + +FES+PY V+ TG IDYD+LE+ A F+PKLI+ G SA
Sbjct: 117 GGHLTHGY------PVNFSGKFFESMPYGVDPDTGLIDYDQLEKNAKLFKPKLIVAGTSA 170
Query: 192 YPRDWDYARFRAVADKCGALLLCDMAHISGLVAAQEAANPFEYCHIVTTTTHKSLRGPRA 251
Y R DYARFR +AD+ GA L+ DMAHI+GLVAA +PF Y H+VTTTTHK+LRGPR
Sbjct: 171 YSRLIDYARFREIADEVGAYLMVDMAHIAGLVAAGVIPSPFPYAHVVTTTTHKTLRGPRG 230
Query: 252 GMIFYRKGPKPPKKGQPEGAVYDFEDKINFAVFPSLQGGPHNHQIGALAVALKQASTPAF 311
GMIF+R+ Y+ E KIN AVFP LQGGP NH I A AVALKQA TP F
Sbjct: 231 GMIFFREIL------------YELEKKINSAVFPGLQGGPLNHVIAAKAVALKQALTPEF 278
Query: 312 KAYAKQVKANAVALGNYLTGKGYSLVTGGTENHLVLWDLRPLGLTGNKVEKLCDLCNITV 371
K Y +QV NA AL L +GY LV+GGT+NHLVL DLRP GL G + EK + NIT
Sbjct: 279 KVYQQQVLKNAKALAEALKERGYKLVSGGTDNHLVLVDLRPKGLDGKRAEKALERANITA 338
Query: 372 NKNAVFGDS-SALAPGGVRIGTPAMTSRGLLEKDFEQIGEFL 412
NKN + GD S G+R+GTPA+TSRG E DFE++ ++
Sbjct: 339 NKNTIPGDPKSPFVTSGLRLGTPALTSRGFGEADFEEVAGYI 380
>gnl|CDD|99733 cd00378, SHMT, Serine-glycine hydroxymethyltransferase (SHMT). This
family belongs to pyridoxal phosphate (PLP)-dependent
aspartate aminotransferase superfamily (fold I). SHMT
carries out interconversion of serine and glycine; it
catalyzes the transfer of hydroxymethyl group of N5,
N10-methylene tetrahydrofolate to glycine resulting in
the formation of serine and tetrahydrofolate. Both
eukaryotic and prokaryotic SHMT enzymes form tight
obligate homodimers; the mammalian enzyme forms a
homotetramer comprising four pyridoxal phosphate-bound
active sites.
Length = 402
Score = 604 bits (1561), Expect = 0.0
Identities = 228/442 (51%), Positives = 285/442 (64%), Gaps = 41/442 (9%)
Query: 13 ETVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIEALGSALTNKYSEGMPGNRYYGGN 72
VDPEI ++I+KE RQ +ELIASENFTS AV+EA+GS LTNKY+EG PG RYYGG
Sbjct: 1 ADVDPEIAEIIKKENERQRETLELIASENFTSPAVMEAMGSDLTNKYAEGYPGKRYYGGC 60
Query: 73 EFIDEIENLCRSRALQTFHLDPTQWGVNVQPYSGSPANFAAYTAVLEPHDRIMGLDLPSG 132
E++DEIE+L RA + F + NVQP+SGS AN A Y A+LEP D IMGLDL G
Sbjct: 61 EYVDEIEDLAIERAKKLFGAE----YANVQPHSGSQANLAVYFALLEPGDTIMGLDLSHG 116
Query: 133 GHLTHGYYTSGGKKISATSIYFESLPYKVNSSTGYIDYDKLEEKALDFRPKLIICGGSAY 192
GHLTHG +T K+SA+ FES+PY V+ TG IDYD LE+ AL+F+PKLI+ G SAY
Sbjct: 117 GHLTHGSFT----KVSASGKLFESVPYGVDPETGLIDYDALEKMALEFKPKLIVAGASAY 172
Query: 193 PRDWDYARFRAVADKCGALLLCDMAHISGLVAAQEAANPFEYCHIVTTTTHKSLRGPRAG 252
PR D+ RFR +AD+ GA LL DMAH++GLVA NP +VTTTTHK+LRGPR G
Sbjct: 173 PRPIDFKRFREIADEVGAYLLVDMAHVAGLVAGGVFPNPLPGADVVTTTTHKTLRGPRGG 232
Query: 253 MIFYRKGPKPPKKGQPEGAVYDFEDKINFAVFPSLQGGPHNHQIGALAVALKQASTPAFK 312
+I RKG + KIN AVFP LQGGPH H I A AVALK+A P FK
Sbjct: 233 LILTRKG--------------ELAKKINSAVFPGLQGGPHLHVIAAKAVALKEALEPEFK 278
Query: 313 AYAKQVKANAVALGNYLTGKGYSLVTGGTENHLVLWDLRPLGLTGNKVEKLCDLCNITVN 372
AYAKQV NA AL L +G+ +V+GGT+NHLVL DLRP G+TG E + ITVN
Sbjct: 279 AYAKQVVENAKALAEALKERGFKVVSGGTDNHLVLVDLRPKGITGKAAEDALEEAGITVN 338
Query: 373 KNAV-FGDSSALAPGGVRIGTPAMTSRGLLEKDFEQIGEFLHRAVTLTLEIQKEYGKLLK 431
KN + + SS P G+RIGTPAMT+RG+ E++ E+I +F+ RA+ ++
Sbjct: 339 KNTLPWDPSSPFVPSGIRIGTPAMTTRGMGEEEMEEIADFIARALKDAEDV--------- 389
Query: 432 DFNKGLVNNKDIEALKADVEKF 453
E ++ +V +
Sbjct: 390 ---------AVAEEVRKEVAEL 402
>gnl|CDD|234571 PRK00011, glyA, serine hydroxymethyltransferase; Reviewed.
Length = 416
Score = 583 bits (1506), Expect = 0.0
Identities = 207/455 (45%), Positives = 270/455 (59%), Gaps = 43/455 (9%)
Query: 9 NSSLETVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIEALGSALTNKYSEGMPGNRY 68
+L DPEI D IE+E +RQ IELIASENF S AV+EA GS LTNKY+EG PG RY
Sbjct: 3 MDNLAEYDPEIADAIEQELKRQEEHIELIASENFVSPAVMEAQGSVLTNKYAEGYPGKRY 62
Query: 69 YGGNEFIDEIENLCRSRALQTFHLDPTQWGVNVQPYSGSPANFAAYTAVLEPHDRIMGLD 128
YGG E++D +E L RA + F ++ NVQP+SGS AN A Y A+L+P D I+G+D
Sbjct: 63 YGGCEYVDVVEQLAIDRAKELFG---AEY-ANVQPHSGSQANAAVYFALLKPGDTILGMD 118
Query: 129 LPSGGHLTHGYYTSGGKKISATSIYFESLPYKVNSSTGYIDYDKLEEKALDFRPKLIICG 188
L GGHLTHG ++ + + + Y V+ TG IDYD++E+ AL+ +PKLII G
Sbjct: 119 LAHGGHLTHG------SPVNFSGKLYNVVSYGVDEETGLIDYDEVEKLALEHKPKLIIAG 172
Query: 189 GSAYPRDWDYARFRAVADKCGALLLCDMAHISGLVAAQEAANPFEYCHIVTTTTHKSLRG 248
SAY R D+ RFR +AD+ GA L+ DMAHI+GLVAA +P + +VTTTTHK+LRG
Sbjct: 173 ASAYSRPIDFKRFREIADEVGAYLMVDMAHIAGLVAAGVHPSPVPHADVVTTTTHKTLRG 232
Query: 249 PRAGMIFYRKGPKPPKKGQPEGAVYDFEDKINFAVFPSLQGGPHNHQIGALAVALKQAST 308
PR G+I + KIN AVFP +QGGP H I A AVA K+A
Sbjct: 233 PRGGLILTNDE--------------ELAKKINSAVFPGIQGGPLMHVIAAKAVAFKEALE 278
Query: 309 PAFKAYAKQVKANAVALGNYLTGKGYSLVTGGTENHLVLWDLRPLGLTGNKVEKLCDLCN 368
P FK YA+QV NA AL L +G+ +V+GGT+NHLVL DLR GLTG + E + N
Sbjct: 279 PEFKEYAQQVVKNAKALAEALAERGFRVVSGGTDNHLVLVDLRSKGLTGKEAEAALEEAN 338
Query: 369 ITVNKNAV-FGDSSALAPGGVRIGTPAMTSRGLLEKDFEQIGEFLHRAVTLTLEIQKEYG 427
ITVNKNAV F S G+RIGTPA+T+RG E + ++I E + +
Sbjct: 339 ITVNKNAVPFDPRSPFVTSGIRIGTPAITTRGFKEAEMKEIAELIADVL----------- 387
Query: 428 KLLKDFNKGLVNNKDIEALKADVEKFASSFDMPGF 462
+ IE +K +V++ F + +
Sbjct: 388 -------DNPDDEAVIEEVKEEVKELCKRFPLYKY 415
>gnl|CDD|223190 COG0112, GlyA, Glycine/serine hydroxymethyltransferase [Amino acid
transport and metabolism].
Length = 413
Score = 576 bits (1486), Expect = 0.0
Identities = 212/454 (46%), Positives = 268/454 (59%), Gaps = 47/454 (10%)
Query: 10 SSLETVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIEALGSALTNKYSEGMPGNRYY 69
+SL DPEI + I++E RQ IELIASENFTS AV+EA GS LTNKY+EG PG RYY
Sbjct: 5 ASLADYDPEIFEAIQQELERQREHIELIASENFTSPAVMEAQGSDLTNKYAEGYPGKRYY 64
Query: 70 GGNEFIDEIENLCRSRALQTFHLDPTQWGVNVQPYSGSPANFAAYTAVLEPHDRIMGLDL 129
GG E++DE+E L RA + F + NVQP+SGS AN A Y A+L+P D IMGLDL
Sbjct: 65 GGCEYVDEVEELAIERAKKLFGAE----YANVQPHSGSQANQAVYLALLQPGDTIMGLDL 120
Query: 130 PSGGHLTHGYYTSGGKKISATSIYFESLPYKVNSSTGYIDYDKLEEKALDFRPKLIICGG 189
GGHLTHG ++ + F + Y V+ TG IDYD++E+ A + +PKLII GG
Sbjct: 121 SHGGHLTHGS------PVNFSGKLFNVVSYGVDPETGLIDYDEVEKLAKEVKPKLIIAGG 174
Query: 190 SAYPRDWDYARFRAVADKCGALLLCDMAHISGLVAAQEAANPFEYCHIVTTTTHKSLRGP 249
SAY R D+ RFR +AD+ GA L+ DMAH++GL+A NP + +VTTTTHK+LRGP
Sbjct: 175 SAYSRPIDFKRFREIADEVGAYLMVDMAHVAGLIAGGVHPNPLPHADVVTTTTHKTLRGP 234
Query: 250 RAGMIFYRKGPKPPKKGQPEGAVYDFEDKINFAVFPSLQGGPHNHQIGALAVALKQASTP 309
R G+I + KIN AVFP LQGGP H I A AVA K+A P
Sbjct: 235 RGGIILTND--------------EELAKKINSAVFPGLQGGPLMHVIAAKAVAFKEALEP 280
Query: 310 AFKAYAKQVKANAVALGNYLTGKGYSLVTGGTENHLVLWDLRPLGLTGNKVEKLCDLCNI 369
FK YAKQV NA AL L +G+ +V+GGT+NHLVL DLR GLTG K E + I
Sbjct: 281 EFKEYAKQVVKNAKALAEALKERGFKVVSGGTDNHLVLVDLRSKGLTGKKAEAALERAGI 340
Query: 370 TVNKNAVFGD-SSALAPGGVRIGTPAMTSRGLLEKDFEQIGEFLHRAVTLTLEIQKEYGK 428
TVNKNA+ D S G+RIGTPA+T+RG E + E+I + +
Sbjct: 341 TVNKNAIPFDPESPFVTSGIRIGTPAVTTRGFGEAEMEEIADLIADV------------- 387
Query: 429 LLKDFNKGLVNNKDIEA-LKADVEKFASSFDMPG 461
L KD+ A +K +V + F +
Sbjct: 388 --------LDGLKDVPAEVKEEVAELCRRFPLYK 413
>gnl|CDD|237280 PRK13034, PRK13034, serine hydroxymethyltransferase; Reviewed.
Length = 416
Score = 502 bits (1294), Expect = e-177
Identities = 216/403 (53%), Positives = 262/403 (65%), Gaps = 25/403 (6%)
Query: 9 NSSLETVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIEALGSALTNKYSEGMPGNRY 68
+ SLE D E+ I KE RQ +ELIASENFTS AV+EA GS LTNKY+EG PG RY
Sbjct: 6 SDSLEEYDDEVFAAINKELERQQDHLELIASENFTSPAVMEAQGSVLTNKYAEGYPGKRY 65
Query: 69 YGGNEFIDEIENLCRSRALQTFHLDPTQWGVNVQPYSGSPANFAAYTAVLEPHDRIMGLD 128
YGG EF+DE+E L RA Q F D NVQP+SGS AN A Y A+L+P D I+G+
Sbjct: 66 YGGCEFVDEVEALAIERAKQLFGCD----YANVQPHSGSQANGAVYLALLKPGDTILGMS 121
Query: 129 LPSGGHLTHGYYTSGGKKISATSIYFESLPYKVNSSTGYIDYDKLEEKALDFRPKLIICG 188
L GGHLTHG K+S + ++ ++ Y V+ TG IDYD++EE A + +PKLII G
Sbjct: 122 LSHGGHLTHG------AKVSLSGKWYNAVQYGVDRLTGLIDYDEVEELAKEHKPKLIIAG 175
Query: 189 GSAYPRDWDYARFRAVADKCGALLLCDMAHISGLVAAQEAANPFEYCHIVTTTTHKSLRG 248
SAYPR+ D+ARFR +AD+ GALL+ DMAHI+GLVAA E NPF + H+VTTTTHK+LRG
Sbjct: 176 FSAYPRELDFARFREIADEVGALLMVDMAHIAGLVAAGEHPNPFPHAHVVTTTTHKTLRG 235
Query: 249 PRAGMIFYRKGPKPPKKGQPEGAVYDFEDKINFAVFPSLQGGPHNHQIGALAVALKQAST 308
PR GMI + KIN AVFP LQGGP H I A AVA +A
Sbjct: 236 PRGGMILTNDE--------------EIAKKINSAVFPGLQGGPLMHVIAAKAVAFGEALQ 281
Query: 309 PAFKAYAKQVKANAVALGNYLTGKGYSLVTGGTENHLVLWDLRPLGLTGNKVEKLCDLCN 368
P FK YAKQV ANA AL L +GY LV+GGT+NHL+L DLRP GL+G E+ +
Sbjct: 282 PEFKTYAKQVIANAQALAEVLKERGYDLVSGGTDNHLLLVDLRPKGLSGKDAEQALERAG 341
Query: 369 ITVNKNAVFGDS-SALAPGGVRIGTPAMTSRGLLEKDFEQIGE 410
ITVNKN V GD+ S G+RIGTPA T+RG E +F +I
Sbjct: 342 ITVNKNTVPGDTESPFVTSGIRIGTPAGTTRGFGEAEFREIAN 384
>gnl|CDD|184161 PRK13580, PRK13580, serine hydroxymethyltransferase; Provisional.
Length = 493
Score = 353 bits (907), Expect = e-117
Identities = 157/443 (35%), Positives = 240/443 (54%), Gaps = 61/443 (13%)
Query: 12 LETVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIEALGSALTNKYSEGMPGNRYYGG 71
+ V+P I + I +E Q ++LIASEN++S AV A+G+ LT+KY+EG PG+R+Y G
Sbjct: 30 ILHVEPRIAEAIRQELADQRSSLKLIASENYSSLAVQLAMGNLLTDKYAEGTPGHRFYAG 89
Query: 72 NEFIDEIENLCRSRALQTFHLDPTQWGVNVQPYSGSPANFAAYTAVLEPH---------- 121
+ +D +E A + F + VQP+SG+ AN A+ A+L
Sbjct: 90 CQNVDTVEWEAAEHAKELFGAEHAY----VQPHSGADANLVAFWAILAHKVESPALEKLG 145
Query: 122 ---------------------DRIMGLDLPSGGHLTHGYYTSGGKKISATSIYFESLPYK 160
R++G+ L SGGHLTHG+ + + + F Y
Sbjct: 146 AKTVNDLTEEDWEALRAELGNQRLLGMSLDSGGHLTHGF------RPNISGKMFHQRSYG 199
Query: 161 VNSSTGYIDYDKLEEKALDFRPKLIICGGSAYPRDWDYARFRAVADKCGALLLCDMAHIS 220
V+ TG +DYD++ A +F+P +++ G SAYPR ++A+ R +AD+ GA+L+ DMAH +
Sbjct: 200 VDPDTGLLDYDEIAALAREFKPLILVAGYSAYPRRVNFAKLREIADEVGAVLMVDMAHFA 259
Query: 221 GLVAA---QEAANPFEYCHIVTTTTHKSLRGPRAGMIFYRKGPKPPKKGQPEGAVYDFED 277
GLVA +P + IVTTTTHK+LRGPR G++ +K ++ D
Sbjct: 260 GLVAGKVFTGDEDPVPHADIVTTTTHKTLRGPRGGLVLAKK---------------EYAD 304
Query: 278 KINFAVFPSLQGGPHNHQIGALAVALKQASTPAFKAYAKQVKANAVALGNYLTGKGYSLV 337
++ P + GGP H + A AVAL +A TP F+ YA+QV NA AL +G LV
Sbjct: 305 AVDKGC-PLVLGGPLPHVMAAKAVALAEARTPEFQKYAQQVVDNARALAEGFLKRGARLV 363
Query: 338 TGGTENHLVLWDLRPLGLTGNKVEKLCDLCNITVNKNAVFGDSS-ALAPGGVRIGTPAMT 396
TGGT+NHLVL D+ GLTG + E I N+N++ D + A G+R+GTPA+T
Sbjct: 364 TGGTDNHLVLIDVTSFGLTGRQAESALLDAGIVTNRNSIPSDPNGAWYTSGIRLGTPALT 423
Query: 397 SRGLLEKDFEQIGEFLHRAVTLT 419
+ G+ + +++ E + + ++ T
Sbjct: 424 TLGMGSDEMDEVAELIVKVLSNT 446
>gnl|CDD|99742 cd01494, AAT_I, Aspartate aminotransferase (AAT) superfamily (fold
type I) of pyridoxal phosphate (PLP)-dependent enzymes.
PLP combines with an alpha-amino acid to form a compound
called a Schiff base or aldimine intermediate, which
depending on the reaction, is the substrate in four
kinds of reactions (1) transamination (movement of amino
groups), (2) racemization (redistribution of
enantiomers), (3) decarboxylation (removing COOH
groups), and (4) various side-chain reactions depending
on the enzyme involved. Pyridoxal phosphate (PLP)
dependent enzymes were previously classified into alpha,
beta and gamma classes, based on the chemical
characteristics (carbon atom involved) of the reaction
they catalyzed. The availability of several structures
allowed a comprehensive analysis of the evolutionary
classification of PLP dependent enzymes, and it was
found that the functional classification did not always
agree with the evolutionary history of these enzymes.
Structure and sequence analysis has revealed that the
PLP dependent enzymes can be classified into four major
groups of different evolutionary origin: aspartate
aminotransferase superfamily (fold type I), tryptophan
synthase beta superfamily (fold type II), alanine
racemase superfamily (fold type III), and D-amino acid
superfamily (fold type IV) and Glycogen phophorylase
family (fold type V).
Length = 170
Score = 96.7 bits (241), Expect = 1e-23
Identities = 40/183 (21%), Positives = 62/183 (33%), Gaps = 18/183 (9%)
Query: 79 ENLCRSRALQTFHLDPTQWGVNVQPYSGSPANFAAYTAVLEPHDRIMGLDLPSGGHLTHG 138
+ + P P SG+ AN AA A+L P D ++ G
Sbjct: 2 LEELEEKLARLL--QPGNDKAVFVP-SGTGANEAALLALLGPGDEVIVDANGHGSRYWV- 57
Query: 139 YYTSGGKKISATSIYFESLPYKVNSSTGY-IDYDKLEEKALDFRPKLIICGGSAYP---R 194
+A + +P V+ + +D LEE LI+ +
Sbjct: 58 ---------AAELAGAKPVPVPVDDAGYGGLDVAILEELKAKPNVALIVITPNTTSGGVL 108
Query: 195 DWDYARFRAVADKCGALLLCDMAHISGLVAAQEAANPFEYCHIVTTTTHKSLRGPRAGMI 254
R +A + G LLL D A G A P +VT + HK+L G G++
Sbjct: 109 V-PLKEIRKIAKEYGILLLVDAASAGGASPAPGVLIPEGGADVVTFSLHKNLGGEGGGVV 167
Query: 255 FYR 257
+
Sbjct: 168 IVK 170
>gnl|CDD|215756 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 357
Score = 40.4 bits (95), Expect = 0.002
Identities = 64/338 (18%), Positives = 108/338 (31%), Gaps = 69/338 (20%)
Query: 99 VNVQPYSGSPAN--FAAYTAVLEPHDRIMGLDLPSGGHLTHGYYTSGGKKISATSIYFES 156
V SG+ AN + L P D I+ + P+ + +GG+ +
Sbjct: 66 AAVVFGSGAGANIEALIFLLRLNPGDAIL-VPAPTYPSYIRIFRLAGGEVV--------- 115
Query: 157 LPYKVNSSTGY-IDYDKLEEKALDFRPK---LIICG-----GSAYPRDWDYARFRAVADK 207
Y + SS + +D+D LE + ++ G+ + + + +A +
Sbjct: 116 -RYPLYSSNDFHLDFDALEAALKEATEGNKVVLHTSPHNPTGTVATLE-ELEKLLDLAKE 173
Query: 208 CGALLLCDMAHISGLVAAQEAANPF-----EYCHIVTTTT-HKS--LRGPRAGMIFYRKG 259
LLL D A+ G V A E +++ + K+ L G R G I
Sbjct: 174 HNILLLVDEAYA-GFVFGSLDAVATRALLAEGPNLLVVGSFSKAFGLAGWRVGYILGNA- 231
Query: 260 PKPPKKGQPEGAVYDFEDKINFAVFPSLQGGPHNHQIGALAVALK--QASTPAFKAYAKQ 317
AV K+ + S A A AL + ++
Sbjct: 232 -----------AVISQLRKLARPFYSSTHLQA------AAAAALSDPLLVASELEEMRQR 274
Query: 318 VKANAVALGNYLTGKGYSLVTGGTENHLVLW-DLRPLGLTGNKVEKLCDLCNITVNKNAV 376
+K L + L G S++ + L L P + L + + V
Sbjct: 275 IKERRDYLRDGLEAAGLSVLPS--QAGFFLLTGLDPE-AALALAQVLLEEVGV-----YV 326
Query: 377 FGDSSALAPGGVRIGTPAMTSRGLLEKDFEQIGEFLHR 414
SS PG +RI T E++ E L
Sbjct: 327 TPGSSFGGPGWLRITVAGGTE--------EELEELLEA 356
>gnl|CDD|99734 cd00609, AAT_like, Aspartate aminotransferase family. This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). Pyridoxal
phosphate combines with an alpha-amino acid to form a
compound called a Schiff base or aldimine intermediate,
which depending on the reaction, is the substrate in
four kinds of reactions (1) transamination (movement of
amino groups), (2) racemization (redistribution of
enantiomers), (3) decarboxylation (removing COOH
groups), and (4) various side-chain reactions depending
on the enzyme involved. Pyridoxal phosphate (PLP)
dependent enzymes were previously classified into alpha,
beta and gamma classes, based on the chemical
characteristics (carbon atom involved) of the reaction
they catalyzed. The availability of several structures
allowed a comprehensive analysis of the evolutionary
classification of PLP dependent enzymes, and it was
found that the functional classification did not always
agree with the evolutionary history of these enzymes.
The major groups in this CD corresponds to Aspartate
aminotransferase a, b and c, Tyrosine, Alanine,
Aromatic-amino-acid, Glutamine phenylpyruvate,
1-Aminocyclopropane-1-carboxylate synthase,
Histidinol-phosphate, gene products of malY and cobC,
Valine-pyruvate aminotransferase and Rhizopine
catabolism regulatory protein.
Length = 350
Score = 38.9 bits (91), Expect = 0.005
Identities = 55/300 (18%), Positives = 101/300 (33%), Gaps = 48/300 (16%)
Query: 106 GSPANFAAYTAVLEPHDRIMGLDLPSGGHLTHGYYTSGGKKISATSIYFESLPYKVNSST 165
A A+L P D ++ +P T+ Y + + A +
Sbjct: 68 AQEALSLLLRALLNPGDEVL---VPD---PTYPGYEAAARLAGAEVVPVPLDEEG----- 116
Query: 166 GYIDYDKLEEKALDFRPKLIICG------GSAYPRDWDYARFRAVADKCGALLLCDMAHI 219
G++ +L E A + KL+ G+ + + +A K G L++ D A+
Sbjct: 117 GFLLDLELLEAAKTPKTKLLYLNNPNNPTGAVLSEE-ELEELAELAKKHGILIISDEAY- 174
Query: 220 SGLV------AAQEAANPFEYCHIVTTTTHKSLRGP--RAGMIFYRKGPKPPKKGQPEGA 271
+ LV A + +E ++ + + K+ P R G + PE
Sbjct: 175 AELVYDGEPPPALALLDAYERVIVLRSFS-KTFGLPGLRIGYLI----------APPEEL 223
Query: 272 VYDFEDKINFAVFPSLQGGPHNHQIGALAVALKQASTPAFKAYAKQVKANAVALGNYLTG 331
+ + + + GP A A AL + ++ + AL L
Sbjct: 224 LERLKKLLPYTTS-----GPSTLSQAAAAAALDDG-EEHLEELRERYRRRRDALLEALKE 277
Query: 332 KGYSLVTGGTENHLVLWDLRPLGLTGNKVEKLCDLCNITVNKNAVFGDSSALAPGGVRIG 391
G +V + + DL P G +E+L + V + FG+ G VR+
Sbjct: 278 LGPLVVVKPSGGFFLWLDL-PEGDDEEFLERLLLEAGVVVRPGSAFGEG---GEGFVRLS 333
>gnl|CDD|130881 TIGR01822, 2am3keto_CoA, 2-amino-3-ketobutyrate coenzyme A ligase.
This model represents a narrowly defined clade of animal
and bacterial (almost exclusively Proteobacterial)
2-amino-3-ketobutyrate--CoA ligase. This enzyme can act
in threonine catabolism. The closest homolog from
Bacillus subtilis, and sequences like it, may be
functionally equivalent but were not included in the
model because of difficulty in finding reports of
function [Energy metabolism, Amino acids and amines].
Length = 393
Score = 32.9 bits (75), Expect = 0.41
Identities = 25/97 (25%), Positives = 36/97 (37%), Gaps = 12/97 (12%)
Query: 174 EEKALDFRPKLIICGGSAYPRDWDYARF---RAVADKCGALLLCDMAHISGLVAAQ---- 226
E +A R +LI G + D A +ADK AL++ D H +G +
Sbjct: 163 EARAAGARHRLIATDG-VFSMDGVIAPLDEICDLADKYDALVMVDECHATGFLGPTGRGS 221
Query: 227 -EAANPFEYCHIVTTTTHKSLRGPRAGMIFYRKGPKP 262
E I+T T K+L G G + K
Sbjct: 222 HELCGVMGRVDIITGTLGKALGGASGG---FTTARKE 255
>gnl|CDD|206529 pfam14361, RsbRD_N, RsbT co-antagonist protein rsbRD N-terminal
domain. This domain is found at the N-terminus of a
number of anti-sigma-factor antagonist proteins
including B. subtilis RsbRD. These proteins are
negative regulators of the general stress transcription
factor sigma(B). It is found in association with
pfam01740.
Length = 105
Score = 30.3 bits (69), Expect = 0.61
Identities = 21/93 (22%), Positives = 34/93 (36%), Gaps = 20/93 (21%)
Query: 4 VNEWGNSSLETVDPEIHDLIEKEKRRQCRGIELIASENFTSFAVIEALGSALTNKYSEGM 63
+ W + L T E E R ++ A++EALGS + +
Sbjct: 14 LERWIEAVLATYPERTDRFSEAELREFAN--PVLD-------ALVEALGS-GLDLLAGEW 63
Query: 64 PGNRYYGGNEFIDEIENLCRSRALQTFHLDPTQ 96
E + +E L R RA+Q F P++
Sbjct: 64 --------EELRELLEELSRIRAVQGF--TPSE 86
>gnl|CDD|223234 COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related
enzymes [Coenzyme metabolism].
Length = 388
Score = 32.2 bits (74), Expect = 0.62
Identities = 51/198 (25%), Positives = 71/198 (35%), Gaps = 41/198 (20%)
Query: 38 ASENFTSFA----VIEALGSALTNKYSEGMPGNRYYGGN-EFIDEIENLCRSRALQTFHL 92
S ++ A +IEA +A+ +Y G G+R G + E+E L F
Sbjct: 45 CSNDYLGLASHPELIEAAKAAI-RRYGVGAGGSRLISGTSDLHVELE-----EELADFLG 98
Query: 93 DPTQWGVNVQPYSGSPANFAAYTAVLEPHDRIMGLDLPSGGHLTHGYYTSGGKKISATSI 152
+ SG AN +A+L+ D I D L H G + A
Sbjct: 99 AEA--ALLFS--SGFVANLGLLSALLKKGDLIF-SDE-----LNHASIIDGIRLSRAEVR 148
Query: 153 YFESLPYKVNSSTGYIDYDKLEEK-----ALDFRPKLIICGGSAYPRDWDYA---RFRAV 204
F+ D D LE R KLI+ G + D D A +
Sbjct: 149 RFKHN-----------DLDHLEALLEEARENGARRKLIVTEG-VFSMDGDIAPLPELVEL 196
Query: 205 ADKCGALLLCDMAHISGL 222
A+K GALL D AH G+
Sbjct: 197 AEKYGALLYVDEAHAVGV 214
>gnl|CDD|224090 COG1168, MalY, Bifunctional PLP-dependent enzyme with
beta-cystathionase and maltose regulon repressor
activities [Amino acid transport and metabolism].
Length = 388
Score = 31.9 bits (73), Expect = 0.71
Identities = 16/64 (25%), Positives = 32/64 (50%), Gaps = 7/64 (10%)
Query: 347 LW-DLRPLGLTGNKVEK-LCDLCNITVNKNAVFGDSSALAPGGVRIGTPAMTSRGLLEKD 404
W D R LGL +++ + L + + ++ + FG+ + G VR+ R +LE+
Sbjct: 322 AWLDCRELGLDDSELAEFLLEEAKVALSPGSTFGEEGS---GFVRLN--FACPRAILEEA 376
Query: 405 FEQI 408
E++
Sbjct: 377 LERL 380
>gnl|CDD|235893 PRK06939, PRK06939, 2-amino-3-ketobutyrate coenzyme A ligase;
Provisional.
Length = 397
Score = 31.7 bits (73), Expect = 0.82
Identities = 31/101 (30%), Positives = 41/101 (40%), Gaps = 15/101 (14%)
Query: 172 KLEE-KALDFRPKLIICGGSAYPRDWDYARFRAV---ADKCGALLLCDMAHISGLVAAQE 227
+L+E K R KLI G + D D A + ADK AL++ D +H G V
Sbjct: 164 QLKEAKEAGARHKLIATDG-VFSMDGDIAPLPEICDLADKYDALVMVDDSHAVGFVGENG 222
Query: 228 AANPFEYC------HIVTTTTHKSLRGPRAGMIFYRKGPKP 262
E+ I+T T K+L G G Y G K
Sbjct: 223 RGTV-EHFGVMDRVDIITGTLGKALGGASGG---YTAGRKE 259
>gnl|CDD|131186 TIGR02131, phaP_Bmeg, polyhydroxyalkanoic acid inclusion protein
PhaP. This model describes a protein found in
polyhydroxyalkanoic acid (PHA) gene regions and
incorporated into PHA inclusions in Bacillus cereus and
Bacillus megaterium. The role of the protein may include
amino acid storage (see McCool,G.J. and Cannon,M.C,
1999).
Length = 165
Score = 30.5 bits (68), Expect = 1.2
Identities = 12/38 (31%), Positives = 17/38 (44%)
Query: 403 KDFEQIGEFLHRAVTLTLEIQKEYGKLLKDFNKGLVNN 440
+ EQ + LH+A + KE L DFN +N
Sbjct: 37 EALEQQQDALHKATEGLDALDKELKAELADFNNKTTDN 74
>gnl|CDD|99964 cd03789, GT1_LPS_heptosyltransferase, Lipopolysaccharide
heptosyltransferase is involved in the biosynthesis of
lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a
major component of the outer membrane of gram-negative
bacteria. LPS heptosyltransferase transfers heptose
molecules from ADP-heptose to
3-deoxy-D-manno-octulosonic acid (KDO), a part of the
inner core component of LPS. This family belongs to the
GT-B structural superfamily of glycoslytransferases,
which have characteristic N- and C-terminal domains each
containing a typical Rossmann fold. The two domains have
high structural homology despite minimal sequence
homology. The large cleft that separates the two
domains includes the catalytic center and permits a high
degree of flexibility.
Length = 279
Score = 30.7 bits (70), Expect = 1.6
Identities = 9/30 (30%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 180 FRPKLIICGGSAYP-RDWDYARFRAVADKC 208
+P +++ G++ P + W RF A+AD+
Sbjct: 120 VKPVVVLPPGASGPAKRWPAERFAALADRL 149
>gnl|CDD|237559 PRK13921, PRK13921, CRISPR-associated Cse2 family protein;
Provisional.
Length = 173
Score = 29.8 bits (67), Expect = 1.7
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 400 LLEKDFEQIGEFLHRAVTLTLEIQKEYGKLLKD 432
LL D +Q+ L +A+ L E ++ +LL+D
Sbjct: 104 LLGADADQLAHRLRQAIALLKEQGIDFEELLRD 136
>gnl|CDD|223476 COG0399, WecE, Predicted pyridoxal phosphate-dependent enzyme
apparently involved in regulation of cell wall
biogenesis [Cell envelope biogenesis, outer membrane].
Length = 374
Score = 30.7 bits (70), Expect = 1.8
Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 10/62 (16%)
Query: 161 VNSSTGYIDYDKLEEKALDFRPKLIIC----GGSAYPRDWDYARFRAVADKCGALLLCDM 216
++ T ID D +E A+ R K II G D A+A + G ++ D
Sbjct: 103 IDPDTLNIDPDLIEA-AITPRTKAIIPVHLAGQPC-----DMDAIMALAKRHGLPVIEDA 156
Query: 217 AH 218
A
Sbjct: 157 AQ 158
>gnl|CDD|233587 TIGR01821, 5aminolev_synth, 5-aminolevulinic acid synthase. This
model represents 5-aminolevulinic acid synthase, an
enzyme for one of two routes to the heme precursor
5-aminolevulinate. The protein is a pyridoxal
phosphate-dependent enzyme related to
2-amino-3-ketobutyrate CoA tranferase and
8-amino-7-oxononanoate synthase. This enzyme appears
restricted to the alpha Proteobacteria and mitochondrial
derivatives [Biosynthesis of cofactors, prosthetic
groups, and carriers, Heme, porphyrin, and cobalamin].
Length = 402
Score = 30.5 bits (69), Expect = 2.2
Identities = 21/57 (36%), Positives = 25/57 (43%), Gaps = 4/57 (7%)
Query: 169 DYDKLEEKALDFRPKLIICGGSAYPRDWDYARFRA---VADKCGALLLCDMAHISGL 222
+KL + RPK+I S Y D D A +ADK GAL D H GL
Sbjct: 165 HLEKLLQSVDPNRPKIIAFE-SVYSMDGDIAPIEEICDLADKYGALTYLDEVHAVGL 220
>gnl|CDD|199870 cd06250, M14_PaAOTO_like, Peptidase M14 Succinylglutamate
desuccinylase (ASTE)/aspartoacylase (ASPA)-like
subfamily; subgroup includes Pseudomonas aeruginosa
AotO. An uncharacterized subgroup of the
Succinylglutamate desuccinylase (ASTE)/aspartoacylase
(ASPA) subfamily which is part of the the M14 family of
metallocarboxypeptidases. This subgroup includes
Pseudomonas aeruginosa AotO and related proteins. ASTE
catalyzes the fifth and last step in arginine catabolism
by the arginine succinyltransferase pathway, and
aspartoacylase (ASPA, also known as aminoacylase 2, and
ACY-2; EC:3.5.1.15) cleaves N-acetyl L-aspartic acid
(NAA) into aspartate and acetate. NAA is abundant in the
brain, and hydrolysis of NAA by ASPA may help maintain
white matter. ASPA is an NAA scavenger in other tissues.
Mutations in the gene encoding ASPA cause Canavan
disease (CD), a fatal progressive neurodegenerative
disorder involving dysmyelination and spongiform
degeneration of white matter in children. This enzyme
binds zinc which is necessary for activity. Measurement
of elevated NAA levels in urine is used in the diagnosis
of CD. The gene encoding P. aeruginosa AotO was
characterized as part of an operon encoding an arginine
and ornithine transport system, however it is not
essential for arginine and ornithine uptake.
Length = 359
Score = 29.9 bits (68), Expect = 2.7
Identities = 14/65 (21%), Positives = 24/65 (36%), Gaps = 2/65 (3%)
Query: 212 LLCDMAHISGLVAAQEAANPFEYCHIVTTTTHKSLRGPRAGMIFYRKGP-KPPKKGQPEG 270
+L + H G++A A P ++ L P G++ YR P + G
Sbjct: 259 ILRYLVH-RGVIAGDAAPLPPLRRPATPLAGYEMLYAPAGGLVVYRAAPGDWVEAGDLLA 317
Query: 271 AVYDF 275
+ D
Sbjct: 318 EILDP 322
>gnl|CDD|223608 COG0534, NorM, Na+-driven multidrug efflux pump [Defense
mechanisms].
Length = 455
Score = 29.9 bits (68), Expect = 3.4
Identities = 7/35 (20%), Positives = 16/35 (45%)
Query: 386 GGVRIGTPAMTSRGLLEKDFEQIGEFLHRAVTLTL 420
G+ GT + ++ + D ++ L + + L L
Sbjct: 70 IGLGTGTTVLVAQAIGAGDRKKAKRVLGQGLLLAL 104
>gnl|CDD|224114 COG1193, COG1193, Mismatch repair ATPase (MutS family) [DNA
replication, recombination, and repair].
Length = 753
Score = 30.0 bits (68), Expect = 3.4
Identities = 12/61 (19%), Positives = 21/61 (34%), Gaps = 5/61 (8%)
Query: 397 SRGLLEKDFEQIGEFLHRAVTLTLEIQKEYGKLLKDFNKGLVN-----NKDIEALKADVE 451
R LE++ E++ + L LT LL+ + +V E K +
Sbjct: 516 VRKELEEELEEVEKLLDEVELLTGANSGGKTSLLELKAQIVVLAHMGLPVPAEEAKVEAV 575
Query: 452 K 452
Sbjct: 576 D 576
>gnl|CDD|216285 pfam01075, Glyco_transf_9, Glycosyltransferase family 9
(heptosyltransferase). Members of this family belong to
glycosyltransferase family 9. Lipopolysaccharide is a
major component of the outer leaflet of the outer
membrane in Gram-negative bacteria. It is composed of
three domains; lipid A, Core oligosaccharide and the
O-antigen. All of these enzymes transfer heptose to the
lipopolysaccharide core.
Length = 249
Score = 29.2 bits (66), Expect = 4.1
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 181 RPKLIICGGSAYP-RDWDYARFRAVADK 207
RP + C G++ P + W F +A
Sbjct: 107 RPYIAFCPGASRPAKRWPAEHFAELAQA 134
>gnl|CDD|223513 COG0436, COG0436, Aspartate/tyrosine/aromatic aminotransferase
[Amino acid transport and metabolism].
Length = 393
Score = 29.2 bits (66), Expect = 5.6
Identities = 22/118 (18%), Positives = 41/118 (34%), Gaps = 21/118 (17%)
Query: 106 GSPANFAAYTAVLEPHDRIMGLDLPSGGHLTHGY--YTSGGKKISATSIYFESLPYKVNS 163
A F A+ A+L P D ++ +P GY Y + K + +
Sbjct: 98 AKEALFLAFLALLNPGDEVL---IPD-----PGYPSYEAAVKLAGGKPVPVPLDEEENGF 149
Query: 164 STGYIDYDKLEEKALDFRPKLIICG------GSAYPRDWDYARFRAVADKCGALLLCD 215
D + LE + K II G+ Y ++ + +A + +++ D
Sbjct: 150 K---PDLEDLEAAITP-KTKAIILNSPNNPTGAVYSKE-ELKAIVELAREHDIIIISD 202
>gnl|CDD|133063 cd06913, beta3GnTL1_like, Beta 1, 3-N-acetylglucosaminyltransferase
is essential for the formation of
poly-N-acetyllactosamine . This family includes human
Beta3GnTL1 and related eukaryotic proteins. Human
Beta3GnTL1 is a putative
beta-1,3-N-acetylglucosaminyltransferase. Beta3GnTL1 is
expressed at various levels in most of tissues examined.
Beta 1, 3-N-acetylglucosaminyltransferase has been found
to be essential for the formation of
poly-N-acetyllactosamine. Poly-N-acetyllactosamine is a
unique carbohydrate composed of N-acetyllactosamine
repeats. It is often an important part of
cell-type-specific oligosaccharide structures and some
functional oligosaccharides. It has been shown that the
structure and biosynthesis of poly-N-acetyllactosamine
display a dramatic change during development and
oncogenesis. Several members of beta-1,
3-N-acetylglucosaminyltransferase have been identified.
Length = 219
Score = 28.6 bits (64), Expect = 5.7
Identities = 14/50 (28%), Positives = 20/50 (40%), Gaps = 8/50 (16%)
Query: 171 DKLEEKALDFRPKL--------IICGGSAYPRDWDYARFRAVADKCGALL 212
DK E +R KL + S P+ YA+ +A+A G L
Sbjct: 39 DKSAEIIEKWRKKLEDSGVIVLVGSHNSPSPKGVGYAKNQAIAQSSGRYL 88
>gnl|CDD|225822 COG3284, AcoR, Transcriptional activator of acetoin/glycerol
metabolism [Secondary metabolites biosynthesis,
transport, and catabolism / Transcription].
Length = 606
Score = 29.3 bits (66), Expect = 5.7
Identities = 18/57 (31%), Positives = 26/57 (45%), Gaps = 10/57 (17%)
Query: 35 ELIASENFTSFAVIEALGSALTNKYSEGMPG--NRYYGGNEFIDEIENLCRSRALQT 89
LI SE F + + A T +G G + GG F+DEI ++ ALQ+
Sbjct: 377 ALIESELF-GY-----VAGAFTGARRKGYKGKLEQADGGTLFLDEIGDM--PLALQS 425
>gnl|CDD|99739 cd00615, Orn_deC_like, Ornithine decarboxylase family. This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). The major groups
in this CD corresponds to ornithine decarboxylase (ODC),
arginine decarboxylase (ADC) and lysine decarboxylase
(LDC). ODC is a dodecamer composed of six homodimers and
catalyzes the decarboxylation of tryptophan. ADC
catalyzes the decarboxylation of arginine and LDC
catalyzes the decarboxylation of lysine. Members of this
family are widely found in all three forms of life.
Length = 294
Score = 28.8 bits (65), Expect = 6.8
Identities = 35/173 (20%), Positives = 58/173 (33%), Gaps = 29/173 (16%)
Query: 107 SPANFAAYTAVLEPHDRIMGLDLPSGGH--LTHGYYTSGGKKISATSIYFESLPYKVNSS 164
S +N A AV P D+I+ + H + +G SG A +Y +
Sbjct: 85 SSSNKAVILAVCGPGDKIL---IDRNCHKSVINGLVLSG-----AVPVYLKPERNPYYGI 136
Query: 165 TGYIDYDKLEEKALDFR-PKLIICGGSAYPRDWDYARFRAVADKCGAL---LLCDMAHIS 220
G I + ++ ++ K + Y R + ++ +L D AH
Sbjct: 137 AGGIPPETFKKALIEHPDAKAAVITNPTY--YGICYNLRKIVEEAHHRGLPVLVDEAH-- 192
Query: 221 GLVAAQEAANPFEYCH-------IVTTTTHKSLRGPRAG-MIFYRKGPKPPKK 265
A +P IV +THK+L G MI + P +
Sbjct: 193 ---GAHFRFHPILPSSAAMAGADIVVQSTHKTLPALTQGSMIHVKGDLVNPDR 242
>gnl|CDD|224832 COG1921, SelA, Selenocysteine synthase [seryl-tRNASer selenium
transferase] [Amino acid transport and metabolism].
Length = 395
Score = 28.9 bits (65), Expect = 6.9
Identities = 17/64 (26%), Positives = 31/64 (48%), Gaps = 7/64 (10%)
Query: 199 ARFRAVADKCGALLLCDMAHISGLVAAQEAANPFEYCH----IVTTTTHKSLRGPRAGMI 254
+A + G ++ D+A SG + +E + E +V+ + K L GP+AG+I
Sbjct: 177 EELVEIAHEKGLPVIVDLA--SGALVDKEP-DLREALALGADLVSFSGDKLLGGPQAGII 233
Query: 255 FYRK 258
+K
Sbjct: 234 VGKK 237
>gnl|CDD|99738 cd00614, CGS_like, CGS_like: Cystathionine gamma-synthase is a PLP
dependent enzyme and catalyzes the committed step of
methionine biosynthesis. This pathway is unique to
microorganisms and plants, rendering the enzyme an
attractive target for the development of antimicrobials
and herbicides. This subgroup also includes
cystathionine gamma-lyases (CGL), O-acetylhomoserine
sulfhydrylases and O-acetylhomoserine thiol lyases.
CGL's are very similar to CGS's. Members of this group
are widely distributed among all three forms of life.
Length = 369
Score = 28.7 bits (65), Expect = 7.7
Identities = 28/124 (22%), Positives = 41/124 (33%), Gaps = 38/124 (30%)
Query: 105 SGSPANFAAYTAVLEPHDRIMGLDLPSGGHLTHGYYTSGGKKISATSIYFESLPYKVNSS 164
SG A A+L+ D + + Y GG T FE L K+
Sbjct: 63 SGMAAISTVLLALLKAGDHV---------VASDDLY--GG-----TYRLFERLLPKLGIE 106
Query: 165 TGYIDYDKLE--EKALDFRPKLI-----------ICGGSAYPRDWDYARFRAVADKCGAL 211
++D D E E A+ KL+ + D +A + GAL
Sbjct: 107 VTFVDPDDPEALEAAIKPETKLVYVESPTNPTLKVV---------DIEAIAELAHEHGAL 157
Query: 212 LLCD 215
L+ D
Sbjct: 158 LVVD 161
>gnl|CDD|236448 PRK09281, PRK09281, F0F1 ATP synthase subunit alpha; Validated.
Length = 502
Score = 28.5 bits (65), Expect = 8.4
Identities = 16/63 (25%), Positives = 31/63 (49%), Gaps = 5/63 (7%)
Query: 397 SRGLLEK-DFEQIGEFLHRAVTLTLEIQKEYGKLLKDFNKGLVNNKDIEA-LKADVEKFA 454
+ G L+ E++ F L ++ + LL++ + + +IEA LKA +E+F
Sbjct: 441 TNGYLDDVPVEKVRRFEAE---LLAYLRSNHADLLEEIRETKDLSDEIEAKLKAAIEEFK 497
Query: 455 SSF 457
+F
Sbjct: 498 KTF 500
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.317 0.136 0.408
Gapped
Lambda K H
0.267 0.0740 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,433,833
Number of extensions: 2404604
Number of successful extensions: 2297
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2261
Number of HSP's successfully gapped: 47
Length of query: 471
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 371
Effective length of database: 6,502,202
Effective search space: 2412316942
Effective search space used: 2412316942
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: 61 (27.3 bits)