RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12303
(480 letters)
>gnl|CDD|215836 pfam00282, Pyridoxal_deC, Pyridoxal-dependent decarboxylase
conserved domain.
Length = 373
Score = 453 bits (1168), Expect = e-158
Identities = 141/378 (37%), Positives = 196/378 (51%), Gaps = 14/378 (3%)
Query: 35 PAEMKAMLDLDIPEKGLPLQKLIDDCFTTLKYQVRTGH-PMFMNQLSCGLDVVSMAGEWL 93
P ++ +L P PL ++ D + V T H P F G S+ G+ L
Sbjct: 1 PGYLRPLLPEAAPIIPEPLLDILGDIRKNIMPGVTTWHSPNFHAYFPAGNSYPSLLGDML 60
Query: 94 IATANTNMFTYEIAPVFILMETVVLEKMRQIIGW-------QGGDSILAPGGSISNLYAF 146
N N FT+E +P +E VV++ + +++G G +L G S SNL A
Sbjct: 61 SDAINCNGFTWESSPACTELENVVMDWLAKMLGLPKEFLGSGEGGGVLQGGSSESNLLAL 120
Query: 147 LAARHKMFPTYKEKGLSAIKGQLVMFTSDQCHYSVRSCAAVCGLGTDNCVEVPSDKRGRL 206
LAAR K K G ++ G+LV +TSDQ H S+ A + G+ E+P+D+ G++
Sbjct: 121 LAARTKWIRRMKAAGKPSL-GKLVAYTSDQAHSSIEKAALIAGVE---LREIPTDENGKM 176
Query: 207 IPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVDAAWGGG 266
+LE+ + E K G IPFFV T GTT GAFDP++E+ DIC KY++WLHVDAA+ G
Sbjct: 177 RGMDLEKAIEEDKENGLIPFFVCATLGTTGSGAFDPLQELGDICNKYDLWLHVDAAYAGS 236
Query: 267 LLLSKKYRHPRLTGIERADSVTWNPHKLMGTLLQCSTIHFKQDGLLISCNQMSAEYLFMQ 326
+ ++RH L GIERADS ++NPHK M LL CS + + G L Q + EYL
Sbjct: 237 AFICPEFRH-WLFGIERADSFSFNPHKWMLVLLDCSALWVRDKGALQQALQFNPEYLGHN 295
Query: 327 DKLYDVRYDTGDKVIQCGRHNDIFKLWLQWRAKGDEGFEKQIDRLMELAEYMVKKIKSMP 386
DK DV D GD I R I KLW R+ G EG + QI R +ELA+Y ++
Sbjct: 296 DKQSDVAVDYGDWQIPLSRRFRILKLWFVLRSYGVEGLQNQIRRHVELAKYFEALVRKDS 355
Query: 387 DKFYLILEPEMVNVSFWY 404
F + E + V F
Sbjct: 356 R-FEICAERGLGLVCFRL 372
>gnl|CDD|99743 cd06450, DOPA_deC_like, DOPA decarboxylase family. This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). The major groups
in this CD correspond to DOPA/tyrosine decarboxylase
(DDC), histidine decarboxylase (HDC), and glutamate
decarboxylase (GDC). DDC is active as a dimer and
catalyzes the decarboxylation of tyrosine. GDC catalyzes
the decarboxylation of glutamate and HDC catalyzes the
decarboxylation of histidine.
Length = 345
Score = 359 bits (923), Expect = e-121
Identities = 128/404 (31%), Positives = 186/404 (46%), Gaps = 61/404 (15%)
Query: 75 FMNQLSCGLDVVSMAGEWLIATANTNMFTYEIAPVFILMETVVLEKMRQIIGWQGGDS-- 132
F+ +D ++ E L + N FT++ +P ME V+ + ++ G D+
Sbjct: 1 FLAGFVTTMDPPALLLEMLTSAKNAIDFTWDESPAATEMEAEVVNWLAKLFGLPSEDADG 60
Query: 133 ILAPGGSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQCHYSVRSCAAVCGLGT 192
+ GGS SNL A LAAR + K G I +LV+ SDQ H SV AA
Sbjct: 61 VFTSGGSESNLLALLAARDRARKRLKAGGGRGID-KLVIVCSDQAHVSVEKAAA---YLD 116
Query: 193 DNCVEVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQK 252
VP D+ GR+ P LE + E KA+G P V T+GTT GA DP+EEIAD+ +K
Sbjct: 117 VKVRLVPVDEDGRMDPEALEAAIDEDKAEGLNPIMVVATAGTTDTGAIDPLEEIADLAEK 176
Query: 253 YNMWLHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHKLMGTLLQCSTIHFKQDGLL 312
Y++WLHVDAA+GG LL + RH GIER DS++ +PHK L CS + +
Sbjct: 177 YDLWLHVDAAYGGFLLPFPEPRH-LDFGIERVDSISVDPHKYGLVPLGCSAVLVR----- 230
Query: 313 ISCNQMSAEYLFMQDKLYDVRYDTGDKVIQCGRHNDIFKLWLQWRAKGDEGFEKQIDRLM 372
KLW R G +G+ + IDR++
Sbjct: 231 ------------------------------------ALKLWATLRRFGRDGYGEHIDRIV 254
Query: 373 ELAEYMVKKIKSMPDKFYLILEPEMVNVSFWYLPTRVRNMPHEKRLNILGEITPILKGRM 432
+LA+Y+ + I++ P F L+ EP + V F P+ L E+ L R+
Sbjct: 255 DLAKYLAELIRADP-GFELLGEPNLSLVCFRLKPSVK-----------LDELNYDLSDRL 302
Query: 433 MQAGTMMVGYQPLNDLPNFFRNIISSAAVTEGDIDFLLTEMDRL 476
+ G V L PN R ++++ T D D LL +++R
Sbjct: 303 NERGGWHVPATTLGG-PNVLRFVVTNPLTTRDDADALLEDIERA 345
>gnl|CDD|223154 COG0076, GadB, Glutamate decarboxylase and related PLP-dependent
proteins [Amino acid transport and metabolism].
Length = 460
Score = 202 bits (515), Expect = 2e-59
Identities = 106/386 (27%), Positives = 168/386 (43%), Gaps = 28/386 (7%)
Query: 25 RNEKVLHFYHPAEMKAMLDLDIPEKGLPLQKLIDDCFTTLKYQV------RTGHPMFMNQ 78
P PEKG PL++++D+ L + GHP
Sbjct: 12 SKRYSGDSLSPLFGALSDSRMAPEKGEPLEEVLDE----LAELLIKDELYLDGHPRANLA 67
Query: 79 LSCGLDVVSMAGEWLIATANTNMFTYEIAPVFILMETVVLEKMRQIIGW-QGGDSILAPG 137
C V +A E L++ N N+ + +P +E V+ + ++G + G
Sbjct: 68 GFCPTRVPPVAAELLVSALNKNLGDPDESPAAAELEERVVNMLSDLLGAPEEASGTFTSG 127
Query: 138 GSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQCHYSVRSCAAVCGLGTDNCVE 197
G+ +NL A LAAR + + G+ + S+ H+S A GLG
Sbjct: 128 GTEANLLALLAAR-ERWRKRALAESGKPGGKPNIVCSETAHFSFEKAARYLGLG---LRR 183
Query: 198 VPSDK-RGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMW 256
VP+ R+ LE + E G + V T+GTT G+ D IEE+ADI ++Y +W
Sbjct: 184 VPTVPTDYRIDVDALEEAIDENTIGGVV---V-GTAGTTDTGSIDDIEELADIAEEYGIW 239
Query: 257 LHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHKLMGTLLQCSTIHFKQDGLLISCN 316
LHVDAA+GG LL + G+E DS+T + HK + C + F+ + L
Sbjct: 240 LHVDAAFGGFLLPFLEPDGRWDFGLEGVDSITVDGHKYGLAPIGCGVVLFRDEEALRRIL 299
Query: 317 QMSAEYLFMQDKLYDVRYDTGDKVIQCGRHNDIFKLWLQWRAKGDEGFEKQIDRLMELAE 376
+ YL + + + GR L+ R G EG+ K +DR +ELA
Sbjct: 300 IFADYYL----PGGGIP-NFTILGSRPGR--QALALYANLRRLGREGYRKLLDRTLELAR 352
Query: 377 YMVKKIKSMPDKFYLILEPEMVNVSF 402
Y+ ++++ + D F L+ EPE+ V+F
Sbjct: 353 YLAEELEKLGD-FELVNEPELPIVAF 377
>gnl|CDD|163511 TIGR03799, NOD_PanD_pyr, putative pyridoxal-dependent aspartate
1-decarboxylase. This enzyme is proposed here to be a
form of aspartate 1-decarboxylase, pyridoxal-dependent,
that represents a non-orthologous displacement to the
more widely distributed pyruvoyl-dependent form
(TIGR00223). Aspartate 1-decarboxylase makes
beta-alanine, used usually in pathothenate biosynthesis,
by decarboxylation from asparatate. A number of species
with the PanB and PanC enzymes, however, lack PanD. This
protein family occurs in a number of Proteobacteria that
lack PanD. This enzyme family appears to be a
pyridoxal-dependent enzyme (see pfam00282). The family
was identified by Partial Phylogenetic Profiling;
members in Geobacter sulfurreducens, G. metallireducens,
and Pseudoalteromonas atlantica are clustered with the
genes for PanB and PanC. We suggest the gene symbol panP
(panthothenate biosynthesis enzyme, Pyridoxal-dependent)
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Pantothenate and coenzyme A].
Length = 522
Score = 158 bits (401), Expect = 1e-42
Identities = 113/390 (28%), Positives = 178/390 (45%), Gaps = 33/390 (8%)
Query: 46 IPEKGLPLQKLIDDCFTTLKYQ-VRTGHPMFMNQLSCGLDVVSMAGEWLIATANTNMFTY 104
IPE+ + + L V T P F+ ++ L + L+ N N+
Sbjct: 62 IPEQPTFVSEHTQFLLDKLVAHSVHTASPSFIGHMTSALPYFMLPLSKLMVALNQNLVKI 121
Query: 105 EIAPVFILMETVVLEKMRQIIGWQGGD-----------SILA--PGGSISNLYAFLAARH 151
E + F +E VL M ++ Q D S+ A GG+++N+ A AR+
Sbjct: 122 ETSKAFTPLERQVLGMMHHLVYGQDDDFYRKWMHSADHSLGAFCSGGTVANITALWVARN 181
Query: 152 KMFPTYKE-KGLSA---IKG-------QLVMFTSDQCHYSVRSCAAVCGLGTDNCVEVPS 200
++ + KG++ L + S++ HYS+ A V G+G DN + + +
Sbjct: 182 RLLKADGDFKGVAREGLFAALKHYGYDGLAILVSERGHYSLGKAADVLGIGRDNLIAIKT 241
Query: 201 DKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVD 260
D R+ L E + P + +GTT G DP++E+ADI Q+ HVD
Sbjct: 242 DANNRIDVDALRDKCAELAEQNIKPLAIVGVAGTTETGNIDPLDEMADIAQELGCHFHVD 301
Query: 261 AAWGGGLLLSKKYRHPRLTGIERADSVTWNPHKLMGTLLQCSTIHFKQDGLLISCNQMSA 320
AAWGG LLS YRH L GIERADSVT + HK + + + FK D L+S + A
Sbjct: 302 AAWGGATLLSNTYRH-LLKGIERADSVTIDAHKQLYVPMGAGMVLFK-DPALMSAIEHHA 359
Query: 321 EYLFMQDKLYDVRYDTGDKVIQCGRHNDIFKLWLQWRAKGDEGFEKQIDRLMELAEYMVK 380
EY+ + D G ++ R ++ G +G+E ID+ +E A+Y
Sbjct: 360 EYILRKGS-----KDLGSHTLEGSRPGMAMLVYAGLHIIGRKGYELLIDQSIEKAKYFAD 414
Query: 381 KIKSMPDKFYLILEPEMVNVSFWYLPTRVR 410
I+ PD F L+ EPE+ +++ Y+P V+
Sbjct: 415 LIQQQPD-FELVTEPELCLLTYRYVPEEVQ 443
>gnl|CDD|215475 PLN02880, PLN02880, tyrosine decarboxylase.
Length = 490
Score = 135 bits (341), Expect = 1e-34
Identities = 110/424 (25%), Positives = 182/424 (42%), Gaps = 27/424 (6%)
Query: 10 QLVNILLNYIKESNDRNEKVLHFYHPAEMKAMLDLDIPEKGLPLQKLIDDCFTTLKYQVR 69
++V+ + +Y K N VL P ++ +L P + L +++DD ++ ++
Sbjct: 21 RMVDFIADYYKSI--ENFPVLSQVQPGYLRELLPDSAPNQPETLDQVLDD----VQAKIL 74
Query: 70 TG-----HPMFMNQLSCGLDVVSMAGEWLIATANTNMFTYEIAPVFILMETVVLE---KM 121
G P + V GE L A N F++ +P +E +VL+ K+
Sbjct: 75 PGVTHWQSPNYFAYYPSNSSVAGFLGEMLSAGLNIVGFSWITSPAATELEMIVLDWLAKL 134
Query: 122 ----RQIIGWQGGDSILAPGGSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQC 177
Q + G ++ S + L LAAR ++ + L +LV++ SDQ
Sbjct: 135 LNLPEQFLSTGNGGGVIQGTASEAVLVVLLAARDRVLRKVGKNALE----KLVVYASDQT 190
Query: 178 HYSVRSCAAVCGLGTDNC--VEVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTT 235
H +++ + G+ +NC ++ S L P L + + G IPFF+ T GTT
Sbjct: 191 HSALQKACQIAGIHPENCRLLKTDSSTNYALAPELLSEAISTDLSSGLIPFFLCATVGTT 250
Query: 236 VLGAFDPIEEIADICQKYNMWLHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHKLM 295
A DP+ E+ I + MW HVDAA+ G + +YRH + G+E ADS N HK
Sbjct: 251 SSTAVDPLLELGKIAKSNGMWFHVDAAYAGSACICPEYRH-YIDGVEEADSFNMNAHKWF 309
Query: 296 GTLLQCSTIHFKQDGLLISCNQMSAEYLFMQDKLYDVRYDTGDKVIQCGRHNDIFKLWLQ 355
T CS + K LI + E+L + + D D I GR KLW+
Sbjct: 310 LTNFDCSLLWVKDRNALIQSLSTNPEFLKNKASQANSVVDYKDWQIPLGRRFRSLKLWMV 369
Query: 356 WRAKGDEGFEKQIDRLMELAEYMVKKIKSMPDKFYLILEPEMVNVSFWYLPTRVRNMPHE 415
R G E + I ++LA+ + + +F ++ V F +P + N +
Sbjct: 370 LRLYGVENLQSYIRNHIKLAKEFEQLVAQDS-RFEVVTPRIFSLVCFRLVPPK-NNEDNG 427
Query: 416 KRLN 419
+LN
Sbjct: 428 NKLN 431
>gnl|CDD|178200 PLN02590, PLN02590, probable tyrosine decarboxylase.
Length = 539
Score = 132 bits (333), Expect = 2e-33
Identities = 112/390 (28%), Positives = 174/390 (44%), Gaps = 21/390 (5%)
Query: 11 LVNILLNYIKESNDRNEK--VLHFYHPAEMKAMLDLDIPEKGLPLQKLIDDCFTTLKYQV 68
+V+ + +Y K D + VL P ++ ML PE+ L++L+DD + +
Sbjct: 66 MVDFIADYYKNLQDSPQDFPVLSQVQPGYLRDMLPDSAPERPESLKELLDDVSKKIMPGI 125
Query: 69 RTGH-PMFMNQLSCGLDVVSMAGEWLIATANTNMFTYEIAPVFILMETVVLEKMRQIIGW 127
P + + V GE L A + FT+ +P +E +VL+ + +++
Sbjct: 126 THWQSPSYFAYYASSTSVAGFLGEMLNAGLSVVGFTWLTSPAATELEIIVLDWLAKLL-- 183
Query: 128 QGGDSILAPG---------GSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQCH 178
Q D L+ G G + L LAAR ++ K+ G + + QLV++ SDQ H
Sbjct: 184 QLPDHFLSTGNGGGVIQGTGCEAVLVVVLAARDRIL---KKVGKTLLP-QLVVYGSDQTH 239
Query: 179 YSVRSCAAVCGLGTDNCVEVPSDKRGR--LIPSELERLVLERKAKGDIPFFVNCTSGTTV 236
S R + G+ +N + +D + P LE + AKG IPFF+ T GTT
Sbjct: 240 SSFRKACLIGGIHEENIRLLKTDSSTNYGMPPESLEEAISHDLAKGFIPFFICATVGTTS 299
Query: 237 LGAFDPIEEIADICQKYNMWLHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHKLMG 296
A DP+ + +I +KY +WLHVDAA+ G + +YR + GIE ADS N HK +
Sbjct: 300 SAAVDPLVPLGNIAKKYGIWLHVDAAYAGNACICPEYRK-FIDGIENADSFNMNAHKWLF 358
Query: 297 TLLQCSTIHFKQDGLLISCNQMSAEYLFMQDKLYDVRYDTGDKVIQCGRHNDIFKLWLQW 356
CS + K LI + + EYL + D + D I R KLW+
Sbjct: 359 ANQTCSPLWVKDRYSLIDALKTNPEYLEFKVSKKDTVVNYKDWQISLSRRFRSLKLWMVL 418
Query: 357 RAKGDEGFEKQIDRLMELAEYMVKKIKSMP 386
R G E I + LA++ + P
Sbjct: 419 RLYGSENLRNFIRDHVNLAKHFEDYVAQDP 448
>gnl|CDD|234361 TIGR03812, tyr_de_CO2_Arch, tyrosine decarboxylase MnfA. Members
of this protein family are the archaeal form, MnfA, of
tyrosine decarboxylase, and are involved in methanofuran
biosynthesis. Members show clear homology to the
Enterococcus form, Tdc, that is involved in tyrosine
decarboxylation for resistance to acidic conditions
[Biosynthesis of cofactors, prosthetic groups, and
carriers, Other].
Length = 373
Score = 87.4 bits (217), Expect = 1e-18
Identities = 77/315 (24%), Positives = 131/315 (41%), Gaps = 66/315 (20%)
Query: 137 GGSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQCHYSVRSCAAVCGLGTDNCV 196
GG+ +N+ A AA+ + K +++ S H+S A + GL
Sbjct: 84 GGTEANIQAVRAAK-NLAREEKRTP------NIIVPES--AHFSFEKAAEMLGL---ELR 131
Query: 197 EVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMW 256
P D+ + ++E L+ + + +GTT LG D IEE++ I + ++
Sbjct: 132 YAPLDEDYTVDVKDVEDLIDDNTIG------IVGIAGTTELGQIDDIEELSKIALENGIY 185
Query: 257 LHVDAAWGGGLL--LSKKYRHP----RLTGIERADSVTWNPHKLMGTLLQCSTIHFKQDG 310
LHVDAA+GG ++ L K Y P L G+ S+T +PHK+ + + I F+
Sbjct: 186 LHVDAAFGGFVIPFLKKGYNPPPFDFSLPGV---QSITIDPHKMGLSPIPAGGILFRSKS 242
Query: 311 LLISCNQMSAEYLFM--QDKLYDVRYDTGDKVIQCGRHNDIFKLWLQWRAKGDEGFEKQI 368
L + + A YL + Q + R +G + + G EG+ K +
Sbjct: 243 YLKYLS-VDAPYLTVKKQATITGTR--SGASAA---------ATYAVIKYLGREGYRKIV 290
Query: 369 DRLMELAEYMVKKIKSMPDKFYLILEPEMVNVSF----------------WYLPT----- 407
ME Y+V+++K + F ++EP + V+F WY+
Sbjct: 291 AECMENTRYLVEELKKIG--FEPVIEPVLNIVAFEVDDPEEVRKKLRDRGWYVSVTRCPK 348
Query: 408 --RVRNMPHEKRLNI 420
R+ MPH R +I
Sbjct: 349 ALRIVVMPHVTREHI 363
>gnl|CDD|235068 PRK02769, PRK02769, histidine decarboxylase; Provisional.
Length = 380
Score = 73.5 bits (181), Expect = 4e-14
Identities = 63/254 (24%), Positives = 114/254 (44%), Gaps = 41/254 (16%)
Query: 137 GGSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQCHYSVRSCAAVCGLGTDNCV 196
GG+ NLY AR ++FP ++ S HYSV A + L + V
Sbjct: 92 GGTEGNLYGCYLAR-ELFPD------------GTLYYSKDTHYSVSKIARL--LRIKSRV 136
Query: 197 EVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNM- 255
+ S G + +L + E K + P + GTT+ GA D I+EI +I +K +
Sbjct: 137 -ITSLPNGEIDYDDLISKIKENKNQ---PPIIFANIGTTMTGAIDNIKEIQEILKKIGID 192
Query: 256 --WLHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHKLMGTLLQCSTIHFKQDGLLI 313
++H DAA G +L P + + DS+ + HK +G+ + C G+++
Sbjct: 193 DYYIHADAALSGMILPFVNNPPP-FSFADGIDSIAISGHKFIGSPMPC--------GIVL 243
Query: 314 SCNQMSAEYLFMQDKLYDVRY-DTGDKVIQCGR--HNDIFKLWLQWRAKGDEGFEKQIDR 370
+ + ++ DV Y + D+ I R H + LW R+ G +G +++
Sbjct: 244 AKKKY------VERISVDVDYIGSRDQTISGSRNGHTALL-LWAAIRSLGSKGLRQRVQH 296
Query: 371 LMELAEYMVKKIKS 384
+++A+Y V ++++
Sbjct: 297 CLDMAQYAVDRLQA 310
>gnl|CDD|166673 PLN03032, PLN03032, serine decarboxylase; Provisional.
Length = 374
Score = 66.4 bits (162), Expect = 8e-12
Identities = 62/254 (24%), Positives = 106/254 (41%), Gaps = 41/254 (16%)
Query: 138 GSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQCHYSVRSCAAVCGLGTDNCVE 197
G+ NL+ L R FP +++ S + HYSV A + + V+
Sbjct: 94 GTEGNLHGILVGREV-FP------------DGILYASRESHYSVFKAARMYRM---EAVK 137
Query: 198 VPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNM-- 255
VP+ G + +LER + + + K P +N GTTV GA D ++ I I ++
Sbjct: 138 VPTLPSGEIDYDDLERALAKNRDK---PAILNVNIGTTVKGAVDDLDRILRILKELGYTE 194
Query: 256 ---WLHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHKLMGTLLQCSTIHFKQDGLL 312
++H D A G L++ R P +T + SV+ + HK +G + C ++
Sbjct: 195 DRFYIHCDGALFG-LMMPFVSRAPEVTFRKPIGSVSVSGHKFLGCPMPCGVALTRKKH-- 251
Query: 313 ISCNQMSAEYLFMQDKLYDVRYDTGDKVIQCGR--HNDIFKLWLQWRAKGDEGFEKQIDR 370
+ + EYL ++ D I R H ++ LW R KG G ++ +
Sbjct: 252 VKALSQNVEYL-----------NSRDATIMGSRNGHAPLY-LWYTLRRKGYRGIKRDVQH 299
Query: 371 LMELAEYMVKKIKS 384
M A Y+ ++
Sbjct: 300 CMRNAHYLKDRLTE 313
>gnl|CDD|237409 PRK13520, PRK13520, L-tyrosine decarboxylase; Provisional.
Length = 371
Score = 65.7 bits (161), Expect = 1e-11
Identities = 29/67 (43%), Positives = 40/67 (59%), Gaps = 7/67 (10%)
Query: 233 GTTVLGAFDPIEEIADICQKYNMWLHVDAAWGGGLL--LSKKYR-HPRLTGIERADSVTW 289
GTT LG DPI E++ I + ++LHVDAA+GG ++ L L G+ DS+T
Sbjct: 160 GTTELGQVDPIPELSKIALENGIFLHVDAAFGGFVIPFLDDPPNFDFSLPGV---DSITI 216
Query: 290 NPHKLMG 296
+PHK MG
Sbjct: 217 DPHK-MG 222
Score = 41.4 bits (98), Expect = 6e-04
Identities = 22/95 (23%), Positives = 37/95 (38%), Gaps = 31/95 (32%)
Query: 360 GDEGFEKQIDRLMELAEYMVKKIKSMPDKFYLILEPEMVNVSF----------------W 403
G EG+ K ++R ME ++ +++K F ++EP + V+F W
Sbjct: 277 GREGYRKVVERCMENTRWLAEELKER--GFEPVIEPVLNIVAFDDPNPDEVREKLRERGW 334
Query: 404 YLPT-------RVRNMPHEKR------LNILGEIT 425
+ R+ MPH R L L E+
Sbjct: 335 RVSVTRCPEALRIVCMPHVTREHIENFLEDLKEVK 369
>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 = 59.7 bits (145), Expect = 1e-10
Identities = 44/162 (27%), Positives = 60/162 (37%), Gaps = 26/162 (16%)
Query: 136 PGGSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQCHYSV-RSCAAVCGLGTDN 194
P G+ +N A LA G V+ H S A + G
Sbjct: 24 PSGTGANEAALLALL--------------GPGDEVIV-DANGHGSRYWVAAELAGAKP-- 66
Query: 195 CVEVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYN 254
V VP D G L+ +LE + T TT G P++EI I ++Y
Sbjct: 67 -VPVPVDDAGYG---GLDVAILEELKAKPNVALIVITPNTTSGGVLVPLKEIRKIAKEYG 122
Query: 255 MWLHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHKLMG 296
+ L VDAA GG + P AD VT++ HK +G
Sbjct: 123 ILLLVDAASAGGASPAPGVLIPE----GGADVVTFSLHKNLG 160
>gnl|CDD|177904 PLN02263, PLN02263, serine decarboxylase.
Length = 470
Score = 57.9 bits (140), Expect = 5e-09
Identities = 64/259 (24%), Positives = 113/259 (43%), Gaps = 51/259 (19%)
Query: 138 GSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQCHYSVRSCAAVCGLGTDNCVE 197
G+ NL+ L R ++FP +++ S + HYSV A + + CV+
Sbjct: 161 GTEGNLHGILVGR-EVFP------------DGILYASRESHYSVFKAARMYRME---CVK 204
Query: 198 VPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKY---- 253
V + G + ++ + +L K K P +N GTTV GA D ++ + ++
Sbjct: 205 VDTLVSGEIDCADFKAKLLANKDK---PAIINVNIGTTVKGAVDDLDLVIKTLEECGFSQ 261
Query: 254 -NMWLHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHKLMGTLLQCSTIHFKQDGLL 312
++H D A G L++ R P++T + SV+ + HK +G + C G+
Sbjct: 262 DRFYIHCDGALFG-LMMPFVKRAPKVTFKKPIGSVSVSGHKFVGCPMPC--------GVQ 312
Query: 313 IS----CNQMSAEYLFMQDKLYDVRY-DTGDKVIQCGR--HNDIFKLWLQWRAKGDEGFE 365
I+ N +S+ +V Y + D I R H IF LW KG GF+
Sbjct: 313 ITRMEHINVLSS----------NVEYLASRDATIMGSRNGHAPIF-LWYTLNRKGYRGFQ 361
Query: 366 KQIDRLMELAEYMVKKIKS 384
K++ + + A Y+ +++
Sbjct: 362 KEVQKCLRNAHYLKDRLRE 380
>gnl|CDD|163523 TIGR03811, tyr_de_CO2_Ent, tyrosine decarboxylase, Enterococcus
type. This model represents tyrosine decarboxylases in
the family of the Enterococcus faecalis enzyme Tdc.
These enzymes often are encoded next to
tyrosine/tyramine antiporter, together comprising a
system in which tyrosine decarboxylation can protect
against exposure to acid conditions. This clade differs
from the archaeal tyrosine decarboxylases associated
with methanofuran biosynthesis [Cellular processes,
Adaptations to atypical conditions].
Length = 608
Score = 56.8 bits (137), Expect = 2e-08
Identities = 51/173 (29%), Positives = 71/173 (41%), Gaps = 40/173 (23%)
Query: 160 KGLSAIKGQLVMFTSDQCHYSVRSCAAVCGLGTDNCVEVPSDKRGRLIPSELERLVLERK 219
K L + LV T HYS A + G+G D + VP D R+ +ELE+++ +
Sbjct: 217 KDLQKLGKWLVPQTK---HYSWLKAADIIGIGLDQVIPVPVDSNYRMDINELEKIIRKLA 273
Query: 220 AKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYN-----MWLHVDAAWGG--------- 265
A+ V G+T GA D I++I + K +LHVDAA+GG
Sbjct: 274 AEKTPILGVVGVVGSTEEGAVDGIDKIVALRNKLMKEGIYFYLHVDAAYGGYGRAIFLDE 333
Query: 266 -----------------GLLLSKKYRHPRLT-----GIERADSVTWNPHKLMG 296
G+ KK R I A+SVT +PHK MG
Sbjct: 334 DDNFIPYDDLQEVHAEYGVFTEKKEYISREVYNAYKAISEAESVTIDPHK-MG 385
>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 = 54.2 bits (131), Expect = 4e-08
Identities = 37/186 (19%), Positives = 63/186 (33%), Gaps = 42/186 (22%)
Query: 208 PSELERLVLE-RKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVDAAWGGG 266
P ++ ++E AK + T+ T G + +I + + + VD A G
Sbjct: 142 PETFKKALIEHPDAKAAV-----ITNPT-YYGICYNLRKIVEEAHHRGLPVLVDEAHGAH 195
Query: 267 LLLSKKYRHPRLTGIERADSVTWNPHKLMGTLLQCSTIHFKQDGL----LISCNQM---- 318
P + AD V + HK + L Q S IH K D + + +
Sbjct: 196 FRFHPIL--PSSAAMAGADIVVQSTHKTLPALTQGSMIHVKGDLVNPDRVNEALNLHQST 253
Query: 319 SAEYLFMQDKLYDVRYDTGDKVIQCGRHNDIFKLWLQWRAKGDEGFEKQIDRLMELAEYM 378
S YL + D+ RA ++ ++ L+ELA Y
Sbjct: 254 SPSYLILAS-------------------LDV------ARAMMALEGKELVEELIELALYA 288
Query: 379 VKKIKS 384
++I
Sbjct: 289 RQEINK 294
>gnl|CDD|223594 COG0520, csdA, Selenocysteine lyase/Cysteine desulfurase
[Posttranslational modification, protein turnover,
chaperones].
Length = 405
Score = 52.3 bits (126), Expect = 3e-07
Identities = 57/296 (19%), Positives = 106/296 (35%), Gaps = 46/296 (15%)
Query: 195 CVEVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYN 254
+P D G L LE+L+ + V + + V G +P++EIA++ ++
Sbjct: 139 VRVIPLDDDGLLDLDALEKLITPK------TKLVALSHVSNVTGTVNPVKEIAELAHEHG 192
Query: 255 MWLHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHKLMGTLLQCSTIHFKQDGLLIS 314
+ VDAA G + + + D + ++ HK + ++ +++ L
Sbjct: 193 ALVLVDAAQAAG------HLPIDVQELG-CDFLAFSGHKWLLGPTGIGVLYVRKELL--- 242
Query: 315 CNQMS-----AEYLFMQDKLYDVRYDTGDKVIQCGRHNDIFKLW-----LQWRAKGDEGF 364
++ + + V + G N I L + + G
Sbjct: 243 -EELEPFLGGGGMIEYVSRDEGVTLAELPLRFEAGTPN-IAGAIGLAAALDYLLE--IGM 298
Query: 365 EKQIDRLMELAEYMVKKIKSMPDKFYLILEPEMVN--VSFWYLPTRVRNMPHEKRLNILG 422
E EL EY+++ + +P VSF V+ + +L
Sbjct: 299 EAIEAHERELTEYLLEGLSELPGVEIYGPPDADRGGIVSF-----NVKGIHPHDVATLLD 353
Query: 423 EITPILKGRMMQAGTMMVGYQPLNDLPNFFRNIISSAAV--TEGDIDFLLTEMDRL 476
E KG ++AG QPL+ L I +S + TE D+D LL + +
Sbjct: 354 E-----KGIAVRAGHHCA--QPLHRLLGVDATIRASLHLYNTEEDVDRLLEALKKA 402
>gnl|CDD|215829 pfam00266, Aminotran_5, Aminotransferase class-V. This domain is
found in amino transferases, and other enzymes including
cysteine desulphurase EC:4.4.1.-.
Length = 370
Score = 46.9 bits (112), Expect = 1e-05
Identities = 22/91 (24%), Positives = 36/91 (39%), Gaps = 7/91 (7%)
Query: 173 TSDQCHYSVRSCAA-VCGLGTDNCVEVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCT 231
++ H++ + +P D G L LE+L+ R V T
Sbjct: 93 VTEMEHHANLVPWQELAKRTGATVRVIPVDPNGLLDLDALEKLLTPRTK------LVAIT 146
Query: 232 SGTTVLGAFDPIEEIADICQKYNMWLHVDAA 262
+ V G +P+EEI + +Y + VDAA
Sbjct: 147 HVSNVTGTVNPVEEIGKLAHEYGALVVVDAA 177
>gnl|CDD|224029 COG1104, NifS, Cysteine sulfinate desulfinase/cysteine desulfurase
and related enzymes [Amino acid transport and
metabolism].
Length = 386
Score = 44.9 bits (107), Expect = 6e-05
Identities = 27/112 (24%), Positives = 39/112 (34%), Gaps = 22/112 (19%)
Query: 164 AIKGQLVMFTSDQC----------HYSVRSCAAVCGLGTDNCVEV---PSDKRGRLIPSE 210
AIKG + + + Q H +V L EV P D G + +
Sbjct: 77 AIKGAALAYRNAQKGKHIITSAIEHPAVL--NTCRYLERQG-FEVTYLPVDSNGLVDLEQ 133
Query: 211 LERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVDAA 262
LE + V+ G PI EI +IC++ + HVDA
Sbjct: 134 LEEALRPDTI------LVSIMHANNETGTIQPIAEIGEICKERGILFHVDAV 179
>gnl|CDD|99746 cd06453, SufS_like, Cysteine desulfurase (SufS)-like. This family
belongs to the pyridoxal phosphate (PLP)-dependent
aspartate aminotransferase superfamily (fold I). The
major groups in this CD correspond to cysteine
desulfurase (SufS) and selenocysteine lyase. SufS
catalyzes the removal of elemental sulfur and selenium
atoms from L-cysteine, L-cystine, L-selenocysteine, and
L-selenocystine to produce L-alanine; and selenocysteine
lyase catalyzes the decomposition of L-selenocysteine.
Length = 373
Score = 44.0 bits (105), Expect = 1e-04
Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 6/65 (9%)
Query: 198 VPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWL 257
VP D G+L LE+L+ ER V T + VLG +P++EI +I + + +
Sbjct: 119 VPVDDDGQLDLEALEKLLTERTK------LVAVTHVSNVLGTINPVKEIGEIAHEAGVPV 172
Query: 258 HVDAA 262
VD A
Sbjct: 173 LVDGA 177
>gnl|CDD|131032 TIGR01977, am_tr_V_EF2568, cysteine desulfurase family protein.
This model describes a subfamily of probable pyridoxal
phosphate-dependent enzymes in the aminotransferase
class V family. Related families contain members active
as cysteine desulfurases, selenocysteine lyases, or
both. The members of this family form a distinct clade
and all are shorter at the N-terminus. The function of
this subfamily is unknown [Unknown function, Enzymes of
unknown specificity].
Length = 376
Score = 41.2 bits (97), Expect = 0.001
Identities = 19/71 (26%), Positives = 34/71 (47%), Gaps = 6/71 (8%)
Query: 198 VPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWL 257
V D G + P ++R + K + V + + V G PIEEI ++ Q+ ++
Sbjct: 117 VKCDNEGLISPERIKRAI-----KTNTKLIV-VSHASNVTGTILPIEEIGELAQENGIFF 170
Query: 258 HVDAAWGGGLL 268
+DAA G++
Sbjct: 171 ILDAAQTAGVI 181
>gnl|CDD|130848 TIGR01788, Glu-decarb-GAD, glutamate decarboxylase. This model
represents the pyridoxal phosphate-dependent glutamate
(alpha) decarboxylase found in bacteria (low and hi-GC
gram positive, proteobacteria and cyanobacteria),
plants, fungi and at least one archaon (Methanosarcina).
The product of the enzyme is gamma-aminobutyrate (GABA).
Length = 431
Score = 41.2 bits (97), Expect = 0.001
Identities = 25/93 (26%), Positives = 42/93 (45%), Gaps = 16/93 (17%)
Query: 205 RLIPSELERLVLERKAKGDI----PFFVNCTSGTTVLGAFDPIEEIADICQKYN------ 254
R +P + R V++ + + V C GTT G ++ ++ + D +YN
Sbjct: 163 REVPMDPGRYVIDPEQVVEAVDENTIGVVCILGTTYTGEYEDVKALNDALDEYNAKTGWD 222
Query: 255 MWLHVDAAWGGGLL------LSKKYRHPRLTGI 281
+ +HVDAA GG + L +R PR+ I
Sbjct: 223 IPIHVDAASGGFIAPFVYPDLEWDFRLPRVKSI 255
>gnl|CDD|99747 cd06454, KBL_like, KBL_like; this family belongs to the pyridoxal
phosphate (PLP)-dependent aspartate aminotransferase
superfamily (fold I). The major groups in this CD
corresponds to serine palmitoyltransferase (SPT),
5-aminolevulinate synthase (ALAS),
8-amino-7-oxononanoate synthase (AONS), and
2-amino-3-ketobutyrate CoA ligase (KBL). SPT is
responsible for the condensation of L-serine with
palmitoyl-CoA to produce 3-ketodihydrospingosine, the
reaction of the first step in sphingolipid biosynthesis.
ALAS is involved in heme biosynthesis; it catalyzes the
synthesis of 5-aminolevulinic acid from glycine and
succinyl-coenzyme A. AONS catalyses the decarboxylative
condensation of l-alanine and pimeloyl-CoA in the first
committed step of biotin biosynthesis. KBL catalyzes the
second reaction step of the metabolic degradation
pathway for threonine converting 2-amino-3-ketobutyrate,
to glycine and acetyl-CoA. The members of this CD are
widely found in all three forms of life.
Length = 349
Score = 40.6 bits (96), Expect = 0.001
Identities = 25/92 (27%), Positives = 40/92 (43%), Gaps = 9/92 (9%)
Query: 208 PSELERLVLERKAKGDIPFFVNCTSGT-TVLGAFDPIEEIADICQKYNMWLHVDAAWGGG 266
+LE+L L + + T G ++ G P+ E+ D+ +KY L VD A G
Sbjct: 117 MEDLEKL-LREARRPYGKKLI-VTEGVYSMDGDIAPLPELVDLAKKYGAILFVDEAHSVG 174
Query: 267 LLLSKKYRHPRLTGIERADSVTWNPHKLMGTL 298
+ P G+E +T + +MGTL
Sbjct: 175 VYG------PHGRGVEEFGGLTDDVDIIMGTL 200
>gnl|CDD|163191 TIGR03235, DNA_S_dndA, cysteine desulfurase DndA. This model
describes DndA, a protein related to IscS and part of a
larger family of cysteine desulfurases. It is encoded,
typically, divergently from a conserved, sparsely
distributed operon for sulfur modification of DNA. This
modification system is designated dnd, after the
phenotype of DNA degradation during electrophoresis. The
system is sporadically distributed in bacteria, much
like some restriction enzyme operons. DndB is described
as a putative ATPase [DNA metabolism,
Restriction/modification].
Length = 353
Score = 40.2 bits (94), Expect = 0.002
Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 6/70 (8%)
Query: 197 EVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMW 256
+P D+ GR+ EL + V+ G+ PI EIA++ + + +
Sbjct: 117 YLPVDESGRIDVDELADAIRPDTL------LVSIMHVNNETGSIQPIREIAEVLEAHEAF 170
Query: 257 LHVDAAWGGG 266
HVDAA G
Sbjct: 171 FHVDAAQVVG 180
>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 = 36.5 bits (85), Expect = 0.023
Identities = 42/257 (16%), Positives = 86/257 (33%), Gaps = 59/257 (22%)
Query: 242 PIEEIADICQKYNMWLHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHKLMGTLLQC 301
++ I + +++ + + DAA G Y+ ++ + +++ K + T
Sbjct: 137 DMDAIMALAKRHGLPVIEDAAQAHGA----TYKGKKVGSFGDIGAFSFHATKNLTTG--- 189
Query: 302 STIHFKQDGLLISCNQMSAEYLFMQDKLYD-VRY--DTGDKVIQCGRHNDIFKLWLQWR- 357
+G + N ++L + R + G +L +R
Sbjct: 190 -------EGGAVVTND---------EELAEKARSLRNHG-LSRDAVFKYLHEELGYNYRL 232
Query: 358 -----AKGDEGFEKQIDRLME----LAEYMVKKIKSMPDKFYLILEPEMVNVSFWYLPTR 408
A G E+ +D + E +A+ + +K +P L EP+ ++
Sbjct: 233 TEIQAAIGLAQLER-LDEINERRREIAQIYAEALKGLPG-ITLPPEPDGAVHAWHLYTIL 290
Query: 409 VRN--------MPHEKRLNIL--GEITPILKGRMMQAGTMMVGYQPLNDLPN---FFRNI 455
V M K + P+ + +GY P DLPN I
Sbjct: 291 VDEEGISRDALMESLKEAGVGAVVYFRPLHLQPAYR----QLGYFPEGDLPNAEDLSERI 346
Query: 456 IS---SAAVTEGDIDFL 469
+S ++E D+D +
Sbjct: 347 LSLPLHPNLSEEDVDRV 363
>gnl|CDD|132444 TIGR03403, nifS_epsilon, cysteine desulfurase, NifS family, epsilon
proteobacteria type. Members of this family are the
NifS-like cysteine desulfurase of the epsilon division
of the Proteobacteria, similar to the NifS protein of
nitrogen-fixing bacteria. Like NifS, and unlike IscS,
this protein is found as part of a system of just two
proteins, a cysteine desulfurase and a scaffold, for
iron-sulfur cluster biosynthesis. This protein is called
NifS by Olsen, et al. (PMID:11123951), so we use this
designation.
Length = 382
Score = 36.4 bits (84), Expect = 0.027
Identities = 25/97 (25%), Positives = 49/97 (50%), Gaps = 8/97 (8%)
Query: 166 KGQLVMFTSDQCHYSVRS-CAAVCGLGTDNCVEVPSDKRGRLIPSELERLVLERKAKGDI 224
G+ + T++ H +VR+ CA + LG + +P +++G + ++ + E+ A +
Sbjct: 88 GGKNHIITTEVEHPAVRATCAFLESLGVE-VTYLPINEQGTITAEQVREAITEKTALVSV 146
Query: 225 PFFVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVDA 261
+ N T G PI+EI +IC++ + H DA
Sbjct: 147 MWANNET------GMIFPIKEIGEICKERGVLFHTDA 177
>gnl|CDD|224893 COG1982, LdcC, Arginine/lysine/ornithine decarboxylases [Amino acid
transport and metabolism].
Length = 557
Score = 36.2 bits (84), Expect = 0.041
Identities = 28/122 (22%), Positives = 46/122 (37%), Gaps = 16/122 (13%)
Query: 208 PSELERLVLERKAKGDIPFFVNCT-SGTTVLGAFDPIEEIADICQKYNMWLHVDAAWGGG 266
+ +L + N T G ++ + +I ++ Y W+ D A
Sbjct: 153 LETFKEALLAHPDAEKLAVITNPTYDGV----CYN-LRKIVELLHHYGAWVLYDEAHP-- 205
Query: 267 LLLSKKYRHPRLTGIER---ADSVTWNPHKLMGTLLQCSTIHFKQDGLLISCNQMSAEYL 323
+ P L AD VT + HKL+ L Q S IH +DG ++ + + E L
Sbjct: 206 ---AHFDFSPMLPESALNGGADFVTQSTHKLLAALSQASMIH-VKDGRAVNHERFN-EAL 260
Query: 324 FM 325
M
Sbjct: 261 MM 262
>gnl|CDD|223234 COG0156, BioF, 7-keto-8-aminopelargonate synthetase and related
enzymes [Coenzyme metabolism].
Length = 388
Score = 35.7 bits (83), Expect = 0.041
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 238 GAFDPIEEIADICQKYNMWLHVDAAWGGGLL 268
G P+ E+ ++ +KY L+VD A G+L
Sbjct: 185 GDIAPLPELVELAEKYGALLYVDEAHAVGVL 215
>gnl|CDD|201705 pfam01276, OKR_DC_1, Orn/Lys/Arg decarboxylase, major domain.
Length = 417
Score = 35.9 bits (83), Expect = 0.043
Identities = 22/85 (25%), Positives = 35/85 (41%), Gaps = 6/85 (7%)
Query: 245 EIADICQKYNMWLHVDAAWGGGLLLSKKYRHPRLTGIERADS----VTWNPHKLMGTLLQ 300
EI D + ++ D+AW G Y G + + VT + HKL+ Q
Sbjct: 188 EIVDTLGHLSDYILFDSAWVGYEQFIPIYADASPMGGDNVNDPGIIVTQSVHKLLAAFSQ 247
Query: 301 CSTIHFKQDGLLISCNQMSAEYLFM 325
S IH K+D +++ + E M
Sbjct: 248 ASQIH-KKDSHIVNHKRF-NEAFMM 270
>gnl|CDD|215756 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 357
Score = 35.8 bits (83), Expect = 0.048
Identities = 25/143 (17%), Positives = 47/143 (32%), Gaps = 28/143 (19%)
Query: 131 DSILAPGGSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQCHYSVRSCAAVCGL 190
+++ G+ +N+ A + L G + + S + G
Sbjct: 66 AAVVFGSGAGANIEALIFL------------LRLNPGDAI-LVPAPTYPSYIRIFRLAGG 112
Query: 191 GTDNCVEVP--SDKRGRLIPSELERLVLERKAKGDIPFFVNCTS---GTTVLGAFDP--I 243
V P S L LE L+ +G+ GT +
Sbjct: 113 E---VVRYPLYSSNDFHLDFDALEAA-LKEATEGNKVVLHTSPHNPTGT----VATLEEL 164
Query: 244 EEIADICQKYNMWLHVDAAWGGG 266
E++ D+ +++N+ L VD A+ G
Sbjct: 165 EKLLDLAKEHNILLLVDEAYAGF 187
>gnl|CDD|218796 pfam05889, SLA_LP_auto_ag, Soluble liver antigen/liver pancreas
antigen (SLA/LP autoantigen). This family consists of
several eukaryotic and archaeal proteins which are
related to the human soluble liver antigen/liver
pancreas antigen (SLA/LP autoantigen). Autoantibodies
are a hallmark of autoimmune hepatitis, but most are not
disease specific. Autoantibodies to soluble liver
antigen (SLA) and to liver and pancreas antigen (LP)
have been described as disease specific, occurring in
about 30% of all patients with autoimmune hepatitis. The
function of SLA/LP is unknown, however, it has been
suggested that the protein may function as a serine
hydroxymethyltransferase and may be an important enzyme
in the thus far poorly understood selenocysteine
pathway. The archaeal sequences Methanopyrus kandleri
spcS and MK0229 are annotated as being pyridoxal
phosphate-dependent enzymes.
Length = 386
Score = 35.6 bits (82), Expect = 0.054
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 3/43 (6%)
Query: 241 DPIEEIADICQKYNMWLHVDAAWGGGLLLSKKYRHPRLTGIER 283
D ++EIA IC +Y++ V+ A+G + S+KY H +
Sbjct: 172 DRVKEIAKICAEYDVPHLVNGAYG---IQSEKYIHLIQQAAKV 211
>gnl|CDD|235292 PRK04366, PRK04366, glycine dehydrogenase subunit 2; Validated.
Length = 481
Score = 35.5 bits (83), Expect = 0.060
Identities = 27/93 (29%), Positives = 38/93 (40%), Gaps = 36/93 (38%)
Query: 184 CAAVCGLGTDNCVEVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSG-------TTV 236
AA+ G VE+PS++ G + L+ V E T+ T
Sbjct: 177 SAAMAGF---KVVEIPSNEDGLVDLEALKAAVGED------------TAALMLTNPNT-- 219
Query: 237 LGAFDP-IEEIADICQKYNMWLHVDAAWGGGLL 268
LG F+ I EIA+I +H +A GGLL
Sbjct: 220 LGLFERNILEIAEI-------VH-EA---GGLL 241
>gnl|CDD|178182 PLN02569, PLN02569, threonine synthase.
Length = 484
Score = 35.2 bits (81), Expect = 0.073
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 5/48 (10%)
Query: 115 TVVLEKMRQIIGWQGGDSILAPGGSISNLYAFLAARHKMFPTYKEKGL 162
T +E ++Q W+ D ++ PGG++ N+YAF +K F KE GL
Sbjct: 276 TAAIEILQQF-DWEVPDWVIVPGGNLGNIYAF----YKGFKMCKELGL 318
>gnl|CDD|216367 pfam01212, Beta_elim_lyase, Beta-eliminating lyase.
Length = 288
Score = 34.9 bits (81), Expect = 0.077
Identities = 29/153 (18%), Positives = 59/153 (38%), Gaps = 30/153 (19%)
Query: 119 EKMRQIIGWQGGDSILAPGGSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQCH 178
+++ ++ G + + P G+++N A +A E + H
Sbjct: 39 DRVAELFGKEAA--LFVPSGTMANQLALMA----HCRRGDEVICG-----------EPAH 81
Query: 179 YSVRSCAAVCGLGTDNCVEVPSDKRGRLIPSELERLVLERKAKGDIPF----FVNCT--- 231
LG V +P + G+L +LE + + GDI F ++
Sbjct: 82 IYFDETGGHAELGGAQPVPLPGAEAGKLDLEDLEAAI---RPVGDIHFPPTGLISLENTH 138
Query: 232 --SGTTVLGAFDPIEEIADICQKYNMWLHVDAA 262
+G V+ + + + EI I +++ + LH+D A
Sbjct: 139 NSAGGQVV-SLEELREIRAIAREHGIPLHLDGA 170
>gnl|CDD|132443 TIGR03402, FeS_nifS, cysteine desulfurase NifS. Members of this
protein family are NifS, one of several related families
of cysteine desulfurase involved in iron-sulfur (FeS)
cluster biosynthesis. NifS is part of the NIF system,
usually associated with other nif genes involved in
nitrogenase expression and nitrogen fixation. The
protein family is given a fairly broad interpretation
here. It includes a clade nearly always found in
extended nitrogen fixation genomic regions, plus a
second clade more closely related to the first than to
IscS and also part of NifS-like/NifU-like systems. This
model does not extend to a more distantly clade found in
the epsilon proteobacteria such as Helicobacter pylori,
also named NifS in the literature, built instead in
TIGR03403.
Length = 379
Score = 34.9 bits (81), Expect = 0.091
Identities = 20/65 (30%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 197 EVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMW 256
+P D+ GRL EL + + A + + N T G PIEEI +I ++
Sbjct: 115 YLPVDEEGRLDLEELRAAITDDTALVSVMWANNET------GTIFPIEEIGEIAKERGAL 168
Query: 257 LHVDA 261
H DA
Sbjct: 169 FHTDA 173
>gnl|CDD|211833 TIGR03531, selenium_SpcS, O-phosphoseryl-tRNA(Sec) selenium
transferase. In the archaea and eukaryotes, the
conversion of the mischarged serine to selenocysteine
(Sec) on its tRNA is accomplished in two steps. This
enzyme, O-phosphoseryl-tRNA(Sec) selenium transferase,
acts second, after a phosphophorylation step catalyzed
by a homolog of the bacterial SelA protein [Protein
synthesis, tRNA aminoacylation].
Length = 444
Score = 34.3 bits (79), Expect = 0.13
Identities = 16/35 (45%), Positives = 20/35 (57%), Gaps = 3/35 (8%)
Query: 241 DPIEEIADICQKYNMWLHVDAAWGGGLLLSKKYRH 275
D IEEIA IC Y++ V+ A+G L S KY
Sbjct: 222 DDIEEIAKICANYDIPHIVNNAYG---LQSNKYME 253
>gnl|CDD|224089 COG1167, ARO8, Transcriptional regulators containing a DNA-binding
HTH domain and an aminotransferase domain (MocR family)
and their eukaryotic orthologs [Transcription / Amino
acid transport and metabolism].
Length = 459
Score = 34.2 bits (79), Expect = 0.16
Identities = 18/69 (26%), Positives = 31/69 (44%), Gaps = 12/69 (17%)
Query: 194 NCVEVPSDKRGRLIPSELERLVLERKAKG--DIPFFVNCTSGTTVLGAFDPIE---EIAD 248
+ VP D+ G + P LE + + K K P F N T G T+ +E +
Sbjct: 202 RVIPVPVDEDG-IDPEALEEALAQWKPKAVYVTPTFQNPT-GVTM-----SLERRKALLA 254
Query: 249 ICQKYNMWL 257
+ +KY++ +
Sbjct: 255 LAEKYDVLI 263
>gnl|CDD|99737 cd00613, GDC-P, Glycine cleavage system P-protein, alpha- and
beta-subunits. This family consists of Glycine cleavage
system P-proteins EC:1.4.4.2 from bacterial, mammalian
and plant sources. The P protein is part of the glycine
decarboxylase multienzyme complex EC:2.1.2.10 (GDC) also
annotated as glycine cleavage system or glycine
synthase. GDC consists of four proteins P, H, L and T.
The reaction catalysed by this protein is: Glycine +
lipoylprotein <=> S-aminomethyldihydrolipoylprotein +
CO2. Alpha-beta-type dimers associate to form an
alpha(2)beta(2) tetramer, where the alpha- and
beta-subunits are structurally similar and appear to
have arisen by gene duplication and subsequent
divergence with a loss of one active site. The members
of this CD are widely dispersed among all three forms of
cellular life.
Length = 398
Score = 34.1 bits (79), Expect = 0.16
Identities = 44/173 (25%), Positives = 60/173 (34%), Gaps = 48/173 (27%)
Query: 134 LAPGGSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTSDQCHYSVRSCAAVCGLGTD 193
L + + A LAA Y ++ LV D H + + A G
Sbjct: 86 LQDEATAAAEAAGLAAIRA----YHKR-----NKVLV---PDSAHPTNPAVARTRGEPLG 133
Query: 194 -NCVEVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTV-----LGAF-DPIEEI 246
VEVPSD+ G + L+ V E + V LG F D I+EI
Sbjct: 134 IEVVEVPSDEGGTVDLEALKEEVSEE------------VAALMVQYPNTLGVFEDLIKEI 181
Query: 247 ADICQKYNMWLHVDAAWGGGLLLSKKYRHPRLTGIER-----ADSVTWNPHKL 294
ADI ++VD L+ LTG++ AD V N K
Sbjct: 182 ADIAHSAGALVYVDGD-----NLN-------LTGLKPPGEYGADIVVGNLQKT 222
>gnl|CDD|102071 PRK05937, PRK05937, 8-amino-7-oxononanoate synthase; Provisional.
Length = 370
Score = 34.0 bits (78), Expect = 0.17
Identities = 16/58 (27%), Positives = 27/58 (46%)
Query: 211 LERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVDAAWGGGLL 268
LE L+ + + F+ S + G P+E+I + +KY+ L VD A G+
Sbjct: 130 LESLLESCRQRSFGRIFIFVCSVYSFKGTLAPLEQIIALSKKYHAHLIVDEAHAMGIF 187
>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 = 33.5 bits (77), Expect = 0.22
Identities = 15/53 (28%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 208 PSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVD 260
+ LE+L+ + + P + S ++ G PIEEI D+ KY ++D
Sbjct: 163 VAHLEKLL--QSVDPNRPKIIAFESVYSMDGDIAPIEEICDLADKYGALTYLD 213
>gnl|CDD|178257 PLN02651, PLN02651, cysteine desulfurase.
Length = 364
Score = 33.5 bits (77), Expect = 0.24
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 238 GAFDPIEEIADICQKYNMWLHVDAA 262
G P+EEI ++C++ + H DAA
Sbjct: 152 GVIQPVEEIGELCREKKVLFHTDAA 176
>gnl|CDD|184076 PRK13479, PRK13479, 2-aminoethylphosphonate--pyruvate transaminase;
Provisional.
Length = 368
Score = 33.3 bits (77), Expect = 0.25
Identities = 12/34 (35%), Positives = 22/34 (64%), Gaps = 3/34 (8%)
Query: 228 VNCTSGTTVLGAFDPIEEIADICQKYNMWLHVDA 261
V+C + T +L +P++EIA + +++ L VDA
Sbjct: 138 VHCETTTGIL---NPLDEIAAVAKRHGKRLIVDA 168
>gnl|CDD|179511 PRK02948, PRK02948, cysteine desulfurase; Provisional.
Length = 381
Score = 32.8 bits (75), Expect = 0.43
Identities = 32/147 (21%), Positives = 52/147 (35%), Gaps = 17/147 (11%)
Query: 115 TVVLEKMRQIIGWQGGDSILAPGGSISNLYAFLAARHKMFPTYKEKGLSAIKGQLVMFTS 174
V + ++IG + GG+ SN +LA + + I T+
Sbjct: 46 QVCRKTFAEMIGGEEQGIYFTSGGTESN---YLAI-QSLLNALPQNKKHII-------TT 94
Query: 175 DQCHYSVRSCAAVCGLGTDNCVEVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGT 234
H S+ S E+P DK G + +LER + +
Sbjct: 95 PMEHASIHSYFQSLESQGYTVTEIPVDKSGLIRLVDLERAITPDTV------LASIQHAN 148
Query: 235 TVLGAFDPIEEIADICQKYNMWLHVDA 261
+ +G PI EI + +KYN+ H D
Sbjct: 149 SEIGTIQPIAEIGALLKKYNVLFHSDC 175
>gnl|CDD|223153 COG0075, COG0075, Serine-pyruvate aminotransferase/archaeal
aspartate aminotransferase [Amino acid transport and
metabolism].
Length = 383
Score = 32.2 bits (74), Expect = 0.57
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 208 PSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVDA 261
P E+E L++ V+ + T VL +P++EIA +++ L VDA
Sbjct: 119 PEEVEE-ALDKDPDIKAVAVVHNETSTGVL---NPLKEIAKAAKEHGALLIVDA 168
>gnl|CDD|184450 PRK14012, PRK14012, cysteine desulfurase; Provisional.
Length = 404
Score = 32.2 bits (74), Expect = 0.61
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 237 LGAFDPIEEIADICQKYNMWLHVDAAWGGG 266
+G I I +IC++ + HVDAA G
Sbjct: 157 IGVIQDIAAIGEICRERGIIFHVDAAQSVG 186
>gnl|CDD|129937 TIGR00858, bioF, 8-amino-7-oxononanoate synthase.
7-keto-8-aminopelargonic acid synthetase is an alternate
name. This model represents 8-amino-7-oxononanoate
synthase, the BioF protein of biotin biosynthesis. This
model is based on a careful phylogenetic analysis to
separate members of this family from
2-amino-3-ketobutyrate and other related pyridoxal
phosphate-dependent enzymes. In several species,
including Staphylococcus and Coxiella, a candidate
8-amino-7-oxononanoate synthase is confirmed by location
in the midst of a biotin biosynthesis operon but scores
below the trusted cutoff of this model [Biosynthesis of
cofactors, prosthetic groups, and carriers, Biotin].
Length = 360
Score = 31.5 bits (72), Expect = 1.1
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 242 PIEEIADICQKYNMWLHVDAAWGGGLL 268
P+ ++ + ++Y WL VD A G G+L
Sbjct: 164 PLPQLVALAERYGAWLMVDDAHGTGVL 190
>gnl|CDD|131061 TIGR02006, IscS, cysteine desulfurase IscS. This model represents
IscS, one of several cysteine desulfurases from a larger
protein family designated (misleadingly, in this case)
class V aminotransferases. IscS is one of at least 6
enzymes characteristic of the IscSUA-hscAB-fsx system of
iron-sulfur cluster assembly. Scoring almost as well as
proteobacterial sequences included in the model are
mitochondrial cysteine desulfurases, apparently from an
analogous system in eukaryotes. The sulfur, taken from
cysteine, may be used in other systems as well, such as
tRNA base modification and biosynthesis of other
cofactors [Biosynthesis of cofactors, prosthetic groups,
and carriers, Other, Protein synthesis, tRNA and rRNA
base modification].
Length = 402
Score = 31.3 bits (71), Expect = 1.2
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 237 LGAFDPIEEIADICQKYNMWLHVDAAWGGG 266
+G I I +IC++ ++ HVDAA G
Sbjct: 155 IGVIQDIAAIGEICRERKVFFHVDAAQSVG 184
>gnl|CDD|223190 COG0112, GlyA, Glycine/serine hydroxymethyltransferase [Amino acid
transport and metabolism].
Length = 413
Score = 31.0 bits (71), Expect = 1.4
Identities = 27/101 (26%), Positives = 39/101 (38%), Gaps = 12/101 (11%)
Query: 194 NCVEVPSDKRGRLI-PSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQK 252
N V D LI E+E+L E K K I +G + + +I +
Sbjct: 140 NVVSYGVDPETGLIDYDEVEKLAKEVKPKLII-------AGGSAYSRPIDFKRFREIADE 192
Query: 253 YNMWLHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHK 293
+L VD A GL+ + +P + AD VT HK
Sbjct: 193 VGAYLMVDMAHVAGLIAGGVHPNP----LPHADVVTTTTHK 229
>gnl|CDD|224919 COG2008, GLY1, Threonine aldolase [Amino acid transport and
metabolism].
Length = 342
Score = 31.1 bits (71), Expect = 1.4
Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 231 TSGTTVLGAFDPIEEIADICQKYNMWLHVDAA 262
T G TV D +E I+ +C+++ + LH+D A
Sbjct: 141 TEGGTVY-PLDELEAISAVCKEHGLPLHMDGA 171
>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 = 30.8 bits (70), Expect = 1.8
Identities = 24/118 (20%), Positives = 44/118 (37%), Gaps = 20/118 (16%)
Query: 177 CHYSVRSCAAVCGLGTDNCVEVPSDKRGRLIPS-ELERLVLERKAKGDIPFFVNC----T 231
+ + A + G V VP D+ G + EL K K ++N T
Sbjct: 92 TYPGYEAAARLAGA---EVVPVPLDEEGGFLLDLELLEAAKTPKTKL---LYLNNPNNPT 145
Query: 232 SGTTVLGAFDP--IEEIADICQKYNMWLHVDAAWGGGLLLSKKYRHPRLTGIERADSV 287
G +EE+A++ +K+ + + D A+ L+ P L ++ + V
Sbjct: 146 -GAV----LSEEELEELAELAKKHGILIISDEAYAE--LVYDGEPPPALALLDAYERV 196
>gnl|CDD|234385 TIGR03897, lanti_2_LanM, type 2 lantibiotic biosynthesis protein
LanM. Members of this family are known generally as
LanM, a multifunctional enzyme of lantibiotic
biosynthesis. This catalysis by LanM distinguishes the
type 2 lantibiotics, such as mersacidin, cinnamycin, and
lichenicidin, from LanBC-produced type 1 lantibiotics
such as nisin and subtilin. The N-terminal domain
contains regions associated with Ser and Thr
dehydration. The C-terminal region contains a pfam05147
domain, which catalyzes the formation of the lanthionine
bridge [Cellular processes, Toxin production and
resistance].
Length = 931
Score = 30.3 bits (69), Expect = 2.4
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 7/50 (14%)
Query: 202 KRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQ 251
K R+IPSE+E L+ GDIP+F T + + EI D +
Sbjct: 447 KLWRIIPSEIEDLLN-----GDIPYFTTRTDSKDLYDSDG--TEIPDFFK 489
>gnl|CDD|235655 PRK05958, PRK05958, 8-amino-7-oxononanoate synthase; Reviewed.
Length = 385
Score = 30.1 bits (69), Expect = 2.5
Identities = 10/27 (37%), Positives = 17/27 (62%)
Query: 242 PIEEIADICQKYNMWLHVDAAWGGGLL 268
P+ E+ + +++ WL VD A G G+L
Sbjct: 186 PLAELVALARRHGAWLLVDEAHGTGVL 212
>gnl|CDD|182717 PRK10772, PRK10772, cell division protein FtsL; Provisional.
Length = 108
Score = 28.5 bits (64), Expect = 2.6
Identities = 24/65 (36%), Positives = 32/65 (49%), Gaps = 5/65 (7%)
Query: 198 VPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWL 257
V + RL+ +E E+LVLER A DI + N LG +E IA +K M
Sbjct: 41 VTTAHHTRLLTAEREQLVLERDAL-DIE-WRNLILEENALGDHSRVERIA--TEKLQM-Q 95
Query: 258 HVDAA 262
HVD +
Sbjct: 96 HVDPS 100
>gnl|CDD|107206 cd01563, Thr-synth_1, Threonine synthase is a pyridoxal phosphate
(PLP) dependent enzyme that catalyses the last reaction
in the synthesis of threonine from aspartate. It
proceeds by converting O-phospho-L-homoserine (OPH) into
threonine and inorganic phosphate. In plants, OPH is an
intermediate between the methionine and
threonine/isoleucine pathways. Thus threonine synthase
competes for OPH with cystathionine-gamma-synthase, the
first enzyme in the methionine pathway. These enzymes
are in general dimers. Members of this CD, Thr-synth_1,
are widely distributed in bacteria, archaea and higher
plants.
Length = 324
Score = 29.9 bits (68), Expect = 2.8
Identities = 20/81 (24%), Positives = 33/81 (40%), Gaps = 11/81 (13%)
Query: 83 LDVVSMAGEWLIATANTNMFTYEIAPVFIL-METVVLEKMRQIIGWQGGDSILAPGGSIS 141
L +V E + ++ P + +T+ E Q+ GW+ D ++ P G+
Sbjct: 130 LRLVRELAEENWIYLSNSL-----NPYRLEGQKTIAFEIAEQL-GWEVPDYVVVPVGNGG 183
Query: 142 NLYAFLAARHKMFPTYKEKGL 162
N+ A K F KE GL
Sbjct: 184 NITAIW----KGFKELKELGL 200
>gnl|CDD|147866 pfam05944, Phage_term_smal, Phage small terminase subunit. This
family consists of several phage small terminase subunit
proteins as well as some related bacterial sequences.
Length = 132
Score = 28.7 bits (65), Expect = 2.9
Identities = 13/46 (28%), Positives = 23/46 (50%), Gaps = 5/46 (10%)
Query: 344 GRHNDIFKLWLQWRAKGDEGFEKQIDRLMELAEYMVKKIKSMPDKF 389
G +++ + W D G ID +E+A+Y ++ MPD+F
Sbjct: 45 GAQDEVLMTVMVWLF--DVG---DIDGALEIADYAIEHGLPMPDRF 85
>gnl|CDD|234554 TIGR04343, egtE_PLP_lyase, ergothioneine biosynthesis PLP-dependent
enzyme EgtE. Members of this protein family are the
pyridoxal phosphate-dependent enzyme EgtE, which
catalyzes the final step in the biosynthesis of
ergothioneine [Biosynthesis of cofactors, prosthetic
groups, and carriers, Glutathione and analogs].
Length = 370
Score = 29.8 bits (67), Expect = 3.4
Identities = 20/71 (28%), Positives = 29/71 (40%), Gaps = 5/71 (7%)
Query: 196 VEVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNM 255
E+P D GRL + D P V+ T + G P +A++C+ +
Sbjct: 120 RELPVDDDGRLDVDGAASALRA-----DPPALVHLTVVGSHRGTVQPAAAVAELCRAAGV 174
Query: 256 WLHVDAAWGGG 266
L VDAA G
Sbjct: 175 PLVVDAAQALG 185
>gnl|CDD|99748 cd06502, TA_like, Low-specificity threonine aldolase (TA). This
family belongs to pyridoxal phosphate (PLP)-dependent
aspartate aminotransferase superfamily (fold I). TA
catalyzes the conversion of L-threonine or
L-allo-threonine to glycine and acetaldehyde in a
secondary glycine biosynthetic pathway.
Length = 338
Score = 29.6 bits (67), Expect = 4.1
Identities = 23/91 (25%), Positives = 37/91 (40%), Gaps = 10/91 (10%)
Query: 178 HYSVRSCAAVCGLGTDNCVEVPSDKRGRLIPSELERLVLERKAKGDIPFF---VNCTSGT 234
H A L + VP + G+L P +LE + + DI F + T
Sbjct: 81 HIYTDEAGAPEFLSGVKLLPVPG-ENGKLTPEDLEA---AIRPRDDIHFPPPSLVSLENT 136
Query: 235 TVLGAFDPIEEIADI---CQKYNMWLHVDAA 262
T G P++E+ I ++ + LH+D A
Sbjct: 137 TEGGTVYPLDELKAISALAKENGLPLHLDGA 167
>gnl|CDD|237960 PRK15407, PRK15407, lipopolysaccharide biosynthesis protein RfbH;
Provisional.
Length = 438
Score = 29.5 bits (67), Expect = 4.2
Identities = 13/59 (22%), Positives = 20/59 (33%), Gaps = 24/59 (40%)
Query: 222 GDIPFFVNCTSGT-----------------------TVLGAFDPIEEIADICQKYNMWL 257
G +P FV+ T T+ FD + + C K+N+WL
Sbjct: 132 GLVPVFVDVELPTYNIDASLLEAAVSPKTKAIMIAHTLGNPFD-LAAVKAFCDKHNLWL 189
>gnl|CDD|131034 TIGR01979, sufS, cysteine desulfurases, SufSfamily. This model
represents a subfamily of NifS-related cysteine
desulfurases involved in FeS cluster formation needed
for nitrogen fixation among other vital functions. Many
cysteine desulfurases are also active as selenocysteine
lyase and/or cysteine sulfinate desulfinase. This
subfamily is associated with the six-gene SUF system
described in E. coli and Erwinia as an FeS cluster
formation system during oxidative stress. The active
site Cys is this subfamily resembles GHHC with one or
both His conserved [Biosynthesis of cofactors,
prosthetic groups, and carriers, Other].
Length = 403
Score = 29.5 bits (67), Expect = 4.3
Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 6/65 (9%)
Query: 198 VPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWL 257
+P D G L +LE+L+ E+ V T + VLG +P+EEIA + + +
Sbjct: 139 IPLDDDGTLDLDDLEKLLTEK------TKLVAITHVSNVLGTVNPVEEIAKLAHQVGAKV 192
Query: 258 HVDAA 262
VD A
Sbjct: 193 LVDGA 197
>gnl|CDD|237369 PRK13376, pyrB, bifunctional aspartate carbamoyltransferase
catalytic subunit/aspartate carbamoyltransferase
regulatory subunit; Provisional.
Length = 525
Score = 29.3 bits (66), Expect = 4.5
Identities = 29/116 (25%), Positives = 52/116 (44%), Gaps = 23/116 (19%)
Query: 294 LMGTLLQCSTIHFKQDGLLISCN-----------QMSAEYLF-MQDKLYDVR-YDTGDKV 340
L+G LL T+H K +GL I N M Y+ M+ ++VR + + ++
Sbjct: 179 LVGDLLHGRTVHSKVNGLKIFKNVKVDLIAPEELAMPEHYVEKMKKNGFEVRIFSSIEEY 238
Query: 341 IQCGRHNDIFKLW----LQWRAKGDEGFEKQIDRLMELAEYMVKKIKSMPD--KFY 390
+ D+ K+W LQ G++ EK+ L + + + + +P+ KFY
Sbjct: 239 L---SQKDVAKIWYFTRLQLERMGEDILEKE-HILRKAVTFRKEFLDKLPEGVKFY 290
>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 = 29.1 bits (66), Expect = 4.9
Identities = 14/52 (26%), Positives = 22/52 (42%), Gaps = 4/52 (7%)
Query: 242 PIEEIADICQKYNMWLHVDAAWGGGLLLSKKYRHPRLTGIERADSVTWNPHK 293
+ +I + +L VD A GL+ + +P + AD VT HK
Sbjct: 177 DFKRFREIADEVGAYLLVDMAHVAGLVAGGVFPNP----LPGADVVTTTTHK 224
>gnl|CDD|99744 cd06451, AGAT_like, Alanine-glyoxylate aminotransferase (AGAT)
family. This family belongs to pyridoxal phosphate
(PLP)-dependent aspartate aminotransferase superfamily
(fold I). The major groups in this CD correspond to
alanine-glyoxylate aminotransferase (AGAT),
serine-glyoxylate aminotransferase (SGAT), and
3-hydroxykynurenine transaminase (HKT). AGAT is a
homodimeric protein, which catalyses the transamination
of glyoxylate to glycine, and SGAT converts serine and
glyoxylate to hydroxypyruvate and glycine. HKT catalyzes
the PLP-dependent transamination of 3-hydroxykynurenine,
a potentially toxic metabolite of the kynurenine
pathway.
Length = 356
Score = 29.2 bits (66), Expect = 4.9
Identities = 15/64 (23%), Positives = 26/64 (40%), Gaps = 5/64 (7%)
Query: 198 VPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWL 257
V + P E+ + + K + T T G +P+E I + +K++ L
Sbjct: 103 VEKPWGEAVSPEEIAEALEQHDIKA---VTL--THNETSTGVLNPLEGIGALAKKHDALL 157
Query: 258 HVDA 261
VDA
Sbjct: 158 IVDA 161
>gnl|CDD|213793 TIGR03301, PhnW-AepZ, 2-aminoethylphosphonate aminotransferase.
This family includes a number of 2-aminoethylphosphonate
aminotransferases, some of which are indicated to
operate in the catabolism of 2-aminoethylphosphonate
(AEP) and others which are involved in the biosynthesis
of the same compound. The catabolic enzyme (PhnW, ) is
known to use pyruvate:alanine as the transfer partner
and is modeled by the equivalog-level TIGR02326. The
PhnW family is apparently a branch of a larger tree
including genes (AepZ) adjacent to others responsible
for the biosynthesis of phosphonoacetaldehyde. The
identity of the transfer partner is unknown for these
enzymes and considering the reversed flux compared to
PhnW, it may very well be different.
Length = 355
Score = 29.3 bits (66), Expect = 5.1
Identities = 11/35 (31%), Positives = 19/35 (54%), Gaps = 3/35 (8%)
Query: 227 FVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVDA 261
V+ + T +L +P+E IA + + + L VDA
Sbjct: 131 TVHHETTTGIL---NPLEAIAKVARSHGAVLIVDA 162
>gnl|CDD|130302 TIGR01235, pyruv_carbox, pyruvate carboxylase. This enzyme plays a
role in gluconeogensis but not glycolysis [Energy
metabolism, Glycolysis/gluconeogenesis].
Length = 1143
Score = 29.4 bits (66), Expect = 5.2
Identities = 9/29 (31%), Positives = 15/29 (51%)
Query: 238 GAFDPIEEIADICQKYNMWLHVDAAWGGG 266
G + +EE+ D + + A+WGGG
Sbjct: 136 GPPETMEEVLDFAAAIGYPVIIKASWGGG 164
>gnl|CDD|184023 PRK13392, PRK13392, 5-aminolevulinate synthase; Provisional.
Length = 410
Score = 29.1 bits (65), Expect = 5.4
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 2/58 (3%)
Query: 210 ELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVDAAWGGGL 267
+LE + D P + S ++ G PIE I D+ +YN +VD GL
Sbjct: 166 DLEEQL--ASVDPDRPKLIAFESVYSMDGDIAPIEAICDLADRYNALTYVDEVHAVGL 221
>gnl|CDD|223935 COG1003, GcvP, Glycine cleavage system protein P
(pyridoxal-binding), C-terminal domain [Amino acid
transport and metabolism].
Length = 496
Score = 29.2 bits (66), Expect = 6.0
Identities = 21/79 (26%), Positives = 33/79 (41%), Gaps = 11/79 (13%)
Query: 185 AAVCGLGTDNCVEVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDP-I 243
AA+ G V V D+ G + +L + A I T+ +T LG F+ I
Sbjct: 174 AAMAGFKV---VVVKCDENGNVDLDDLRAKAEDNLAALMI------TNPST-LGVFEEDI 223
Query: 244 EEIADICQKYNMWLHVDAA 262
EI +I + ++ D A
Sbjct: 224 REICEIVHEAGGQVYYDGA 242
>gnl|CDD|130700 TIGR01639, P_fal_TIGR01639, Plasmodium falciparum uncharacterized
domain TIGR01639. This model represents a conserved
sequence region of about 60 amino acids found in over 40
predicted proteins of Plasmodium falciparum. It is not
found elsewhere, including closely related species such
as Plasmodium yoelii. No member of this family is
characterized.
Length = 61
Score = 26.4 bits (59), Expect = 6.2
Identities = 8/33 (24%), Positives = 14/33 (42%)
Query: 347 NDIFKLWLQWRAKGDEGFEKQIDRLMELAEYMV 379
ND+ +W Q + F + L E + +V
Sbjct: 29 NDMLIIWNQVHGIERDKFVDMQENLKEYIQKLV 61
>gnl|CDD|185297 PRK15399, PRK15399, lysine decarboxylase LdcC; Provisional.
Length = 713
Score = 28.9 bits (65), Expect = 6.5
Identities = 16/57 (28%), Positives = 23/57 (40%), Gaps = 4/57 (7%)
Query: 257 LHVDAAWGGGLLLSKKYRHPRLTGIER-ADSV---TWNPHKLMGTLLQCSTIHFKQD 309
+H D+AW Y+ ER V T + HK++ Q S IH K +
Sbjct: 327 IHFDSAWVPYTHFHPIYQGKSGMSGERVPGKVIFETQSTHKMLAAFSQASLIHIKGE 383
>gnl|CDD|235551 PRK05667, dnaG, DNA primase; Validated.
Length = 580
Score = 29.0 bits (66), Expect = 6.5
Identities = 6/28 (21%), Positives = 18/28 (64%)
Query: 357 RAKGDEGFEKQIDRLMELAEYMVKKIKS 384
R +G E F +++ + L+E++++++
Sbjct: 346 RKEGPEAFRALLEQAIPLSEFLIRRLIP 373
>gnl|CDD|235289 PRK04350, PRK04350, thymidine phosphorylase; Provisional.
Length = 490
Score = 29.0 bits (66), Expect = 6.8
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 118 LEKMRQIIGWQGGDS 132
LEK ++II QGGDS
Sbjct: 382 LEKFQEIIEAQGGDS 396
>gnl|CDD|237053 PRK12315, PRK12315, 1-deoxy-D-xylulose-5-phosphate synthase;
Provisional.
Length = 581
Score = 28.8 bits (65), Expect = 8.4
Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 11/44 (25%)
Query: 36 AEMKAMLD-----------LDIPEKGLPLQKLIDDCFTTLKYQV 68
E+ AML+ + +PE G+ +D ++TLKY+V
Sbjct: 413 EELIAMLEWALTQHEHPVAIRVPEHGVESGPTVDTDYSTLKYEV 456
>gnl|CDD|180866 PRK07179, PRK07179, hypothetical protein; Provisional.
Length = 407
Score = 28.4 bits (64), Expect = 8.5
Identities = 17/53 (32%), Positives = 24/53 (45%), Gaps = 5/53 (9%)
Query: 208 PSELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVD 260
L R + ER G I V+ TT G P+ +I DI +++ L VD
Sbjct: 170 VDHLRRQI-ERHGPGII--VVDSVYSTT--GTIAPLADIVDIAEEFGCVLVVD 217
>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 = 28.6 bits (64), Expect = 8.6
Identities = 16/59 (27%), Positives = 27/59 (45%)
Query: 210 ELERLVLERKAKGDIPFFVNCTSGTTVLGAFDPIEEIADICQKYNMWLHVDAAWGGGLL 268
+LE + E +A G + ++ G P++EI D+ KY+ + VD G L
Sbjct: 156 DLEAQLKEARAAGARHRLIATDGVFSMDGVIAPLDEICDLADKYDALVMVDECHATGFL 214
>gnl|CDD|240081 cd04730, NPD_like, 2-Nitropropane dioxygenase (NPD), one of the
nitroalkane oxidizing enzyme families, catalyzes
oxidative denitrification of nitroalkanes to their
corresponding carbonyl compounds and nitrites. NDP is a
member of the NAD(P)H-dependent flavin oxidoreductase
family that reduce a range of alternative electron
acceptors. Most use FAD/FMN as a cofactor and NAD(P)H as
electron donor. Some contain 4Fe-4S cluster to transfer
electron from FAD to FMN.
Length = 236
Score = 28.2 bits (64), Expect = 8.6
Identities = 18/72 (25%), Positives = 28/72 (38%), Gaps = 15/72 (20%)
Query: 185 AAVC---GLGTDNCVEVPSDKRGRLIPSELERLVLERKAKGDIPFFVNCTSGTTVLGAFD 241
AAV GLG + + G L P L + + +A D PF VN V +
Sbjct: 20 AAVSNAGGLGF-----IGA---GYLTPEALRAEIRKIRALTDKPFGVNL----LVPSSNP 67
Query: 242 PIEEIADICQKY 253
E + ++ +
Sbjct: 68 DFEALLEVALEE 79
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
0.323 0.139 0.428
Gapped
Lambda K H
0.267 0.0783 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,903,301
Number of extensions: 2457467
Number of successful extensions: 2354
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2309
Number of HSP's successfully gapped: 89
Length of query: 480
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 379
Effective length of database: 6,457,848
Effective search space: 2447524392
Effective search space used: 2447524392
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 61 (27.2 bits)