RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy10210
(435 letters)
>gnl|CDD|223154 COG0076, GadB, Glutamate decarboxylase and related PLP-dependent
proteins [Amino acid transport and metabolism].
Length = 460
Score = 263 bits (675), Expect = 1e-83
Identities = 103/346 (29%), Positives = 158/346 (45%), Gaps = 19/346 (5%)
Query: 72 IPAVRKKLEEETGKVAKLFQDDIKQNNAGLEYFLELPSQGRNRLEILELVSNYLARGHYD 131
I + K + + + + L P +G E+L+ ++ L +
Sbjct: 1 IDGLIDKDMLNSKRYSGDSLSPLFGA---LSDSRMAPEKGEPLEEVLDELAELLIKDE-L 56
Query: 132 WKHGRVSGAVYYYQQDLV-DLLTEVFGLTSYTNPLHPDIFPGVCKMEAEVIKMCARMFNG 190
+ G + + V + E+ N PD P ++E V+ M + +
Sbjct: 57 YLDGHPRANLAGFCPTRVPPVAAELLVSALNKNLGDPDESPAAAELEERVVNMLSDLLGA 116
Query: 191 GPETCGCMTSGGTESIMMACKAYRDYAREE------KGISLPEIVLPTTAHPAFDKAANY 244
E G TSGGTE+ ++A A R+ R+ K P IV TAH +F+KAA Y
Sbjct: 117 PEEASGTFTSGGTEANLLALLAARERWRKRALAESGKPGGKPNIVCSETAHFSFEKAARY 176
Query: 245 FGMKVKHIRLTSS-YTVDLAALQSAITGNTVM--LVGSMPNFPYGTMDDIGAIAKLGEKY 301
G+ ++ + + Y +D+ AL+ AI NT+ +VG+ G++DDI +A + E+Y
Sbjct: 177 LGLGLRRVPTVPTDYRIDVDALEEAIDENTIGGVVVGTAGTTDTGSIDDIEELADIAEEY 236
Query: 302 GIPVHVDCCLGGFLAPFMSAAGYPLPPFDFSLPGVTSISVDTHKYGFTPKGSSVVLYRDL 361
GI +HVD GGFL PF+ P +DF L GV SI+VD HKYG P G VVL+RD
Sbjct: 237 GIWLHVDAAFGGFLLPFLE----PDGRWDFGLEGVDSITVDGHKYGLAPIGCGVVLFRDE 292
Query: 362 -KYKHCQYFVTSDWPGGNYGSPSVSGSRSGGIIATCWAAMMYFGFE 406
+ F PGG + ++ GSR G +A + G E
Sbjct: 293 EALRRILIFADYYLPGGGIPNFTILGSRPGRQALALYANLRRLGRE 338
>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 = 252 bits (647), Expect = 7e-81
Identities = 83/248 (33%), Positives = 114/248 (45%), Gaps = 24/248 (9%)
Query: 136 RVSGAVYYYQQDLVDLLTEVFGLTSYTNPLHPDIFPGVCKMEAEVIKMCARMFNGGPET- 194
++G V + L + D P +MEAEV+ A++F E
Sbjct: 1 FLAGFVTTMDPPALLLEMLTSAKNAIDFT--WDESPAATEMEAEVVNWLAKLFGLPSEDA 58
Query: 195 CGCMTSGGTESIMMACKAYRDYAREE------KGISLPEIVLPTTAHPAFDKAANYFGMK 248
G TSGG+ES ++A A RD AR+ +GI IV AH + +KAA Y +K
Sbjct: 59 DGVFTSGGSESNLLALLAARDRARKRLKAGGGRGIDKLVIVCSDQAHVSVEKAAAYLDVK 118
Query: 249 VKHIRLTSSYTVDLAALQSAI------TGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYG 302
V+ + + +D AL++AI N +M+V + G +D + IA L EKY
Sbjct: 119 VRLVPVDEDGRMDPEALEAAIDEDKAEGLNPIMVVATAGTTDTGAIDPLEEIADLAEKYD 178
Query: 303 IPVHVDCCLGGFLAPFMSAAGYPLPPFDFSLPGVTSISVDTHKYGFTPKGSSVVLYRDLK 362
+ +HVD GGFL PF DF + V SISVD HKYG P G S VL R LK
Sbjct: 179 LWLHVDAAYGGFLLPFPEPRHL-----DFGIERVDSISVDPHKYGLVPLGCSAVLVRALK 233
Query: 363 YKHCQYFV 370
+
Sbjct: 234 ----LWAT 237
>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 = 207 bits (530), Expect = 3e-63
Identities = 98/297 (32%), Positives = 158/297 (53%), Gaps = 18/297 (6%)
Query: 116 EILELVSNYLARGHYDWKHGRVSGAVYYYQQDLVDLLTEVFGLTSYTNPLHPDIFPGVCK 175
E+LE + Y + + GR+ G++ + + + + TN P +FPG K
Sbjct: 4 EVLEELKEYRSEDL-KYSDGRILGSMCTNPHPIA---VKAYDMFIETNLGDPGLFPGTKK 59
Query: 176 MEAEVIKMCARMFNGGPETCGCMTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAH 235
+E EV+ + + P+ G + SGGTE+ + A +A ++ AREEK P I++P +AH
Sbjct: 60 IEEEVVGSLGNLLHL-PDAYGYIVSGGTEANIQAVRAAKNLAREEKRT--PNIIVPESAH 116
Query: 236 PAFDKAANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIA 295
+F+KAA G+++++ L YTVD+ ++ I NT+ +VG G +DDI ++
Sbjct: 117 FSFEKAAEMLGLELRYAPLDEDYTVDVKDVEDLIDDNTIGIVGIAGTTELGQIDDIEELS 176
Query: 296 KLGEKYGIPVHVDCCLGGFLAPFMSAAGYPLPPFDFSLPGVTSISVDTHKYGFTPKGSSV 355
K+ + GI +HVD GGF+ PF+ GY PPFDFSLPGV SI++D HK G +P +
Sbjct: 177 KIALENGIYLHVDAAFGGFVIPFLK-KGYNPPPFDFSLPGVQSITIDPHKMGLSPIPAGG 235
Query: 356 VLYRDLKYKHC----QYFVTSDWPGGNYGSPSVSGSRSGGIIATCWAAMMYFGFEAQ 408
+L+R Y ++T +++G+RSG A +A + Y G E
Sbjct: 236 ILFRSKSYLKYLSVDAPYLTVK------KQATITGTRSGASAAATYAVIKYLGREGY 286
>gnl|CDD|237409 PRK13520, PRK13520, L-tyrosine decarboxylase; Provisional.
Length = 371
Score = 200 bits (512), Expect = 1e-60
Identities = 94/269 (34%), Positives = 142/269 (52%), Gaps = 28/269 (10%)
Query: 162 TNPLHPDIFPGVCKMEAEVIKMCARMFNGGPETCGCMTSGGTESIMMACKAYRDYAREEK 221
TN P +FPG K+E E ++M + P+ G +TSGGTE+ + A +A R+ A+ EK
Sbjct: 46 TNLGDPGLFPGTAKLEEEAVEMLGELL-HLPDAYGYITSGGTEANIQAVRAARNLAKAEK 104
Query: 222 GISLPEIVLPTTAHPAFDKAANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMP 281
P IV+P +AH +FDKAA+ G++++ L Y VD+ A++ I NT+ +VG
Sbjct: 105 ----PNIVVPESAHFSFDKAADMLGVELRRAPLDDDYRVDVKAVEDLIDDNTIGIVGIAG 160
Query: 282 NFPYGTMDDIGAIAKLGEKYGIPVHVDCCLGGFLAPFMSAAGYPLPPFDFSLPGVTSISV 341
G +D I ++K+ + GI +HVD GGF+ PF+ P FDFSLPGV SI++
Sbjct: 161 TTELGQVDPIPELSKIALENGIFLHVDAAFGGFVIPFLDDP----PNFDFSLPGVDSITI 216
Query: 342 DTHKYGFTPKGSSVVLYRDLKYKHC-----QYFVTSDWPGGNYGSPSVSGSRSGGIIATC 396
D HK G P + +L+RD Y Y + +++G+RSG +A
Sbjct: 217 DPHKMGLAPIPAGGILFRDESYLDALAVDTPYLTSKK-------QATLTGTRSGAGVAAT 269
Query: 397 WAAMMYFGFEAQVWICVRYHFNYKSCLQN 425
+A M Y G E Y + C++N
Sbjct: 270 YAVMKYLGREG-------YRKVVERCMEN 291
>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 = 110 bits (277), Expect = 1e-26
Identities = 75/287 (26%), Positives = 127/287 (44%), Gaps = 42/287 (14%)
Query: 168 DIFPGVCKMEAEVIKMCARMFNG---GPETCGCMTSGGTESIM---MACK-AYRDYAREE 220
D +P ++E + M A +++ E G T G +E+IM +A K +R
Sbjct: 73 DEYPQTAEIENRCVNMLADLWHAPAKDAEAVGTSTIGSSEAIMLGGLAMKWRWRKRMEAA 132
Query: 221 -KGISLPEIVLPTTAHPAFDKAANYFGMKVKHIRLTSS-YTVDLAALQSAITGNTVMLVG 278
K P +V+ + ++K A YF ++++ + + Y +D + A+ NT+ +V
Sbjct: 133 GKPTDKPNLVMGSNVQVCWEKFARYFDVELREVPMDPGRYVIDPEQVVEAVDENTIGVVC 192
Query: 279 SMPNFPYGTMDDIGAIAKLGEKYG------IPVHVDCCLGGFLAPFMSAAGYPLPPFDFS 332
+ G +D+ A+ ++Y IP+HVD GGF+APF+ YP +DF
Sbjct: 193 ILGTTYTGEYEDVKALNDALDEYNAKTGWDIPIHVDAASGGFIAPFV----YPDLEWDFR 248
Query: 333 LPGVTSISVDTHKYGFTPKGSSVVLYRDLKYK------HCQYFVTSDWPGGNYGSPSVSG 386
LP V SI+V HKYG G V++RD + H Y GG+ + +++
Sbjct: 249 LPRVKSINVSGHKYGLVYPGVGWVIWRDEEALPEELIFHVNYL------GGDEPTFTLNF 302
Query: 387 SRSGGIIATCWAAMMYFGFEAQVWICVRYHFNYKSCLQNLSDLWLYL 433
SR + + + G E Y+ +QN D+ YL
Sbjct: 303 SRPANQVIAQYYNFLRLGREG-----------YRKIMQNSLDVARYL 338
>gnl|CDD|215836 pfam00282, Pyridoxal_deC, Pyridoxal-dependent decarboxylase
conserved domain.
Length = 373
Score = 86.3 bits (214), Expect = 2e-18
Identities = 54/265 (20%), Positives = 90/265 (33%), Gaps = 45/265 (16%)
Query: 147 DLVDLLTEVFGLTSYTNPLHPDIFPGVCKMEAEVIKMCARM------FNGGPETCGCMTS 200
LL ++ N + P ++E V+ A+M F G E G +
Sbjct: 51 SYPSLLGDMLSDAINCNGFTWESSPACTELENVVMDWLAKMLGLPKEFLGSGEGGGVLQG 110
Query: 201 GGTESIMMACKAYRDYAREEKGISLPE----IVLPTT--AHPAFDKAANYFGMKVKHIRL 254
G +ES ++A A R + +V T+ AH + +KAA G++++ I
Sbjct: 111 GSSESNLLALLAARTKWIRRMKAAGKPSLGKLVAYTSDQAHSSIEKAALIAGVELREIPT 170
Query: 255 TSSYTVDLAALQSAI-----TGNTVMLVGSMPNF---PYGTMDDIGAIAKLGEKYGIPVH 306
+ + L+ AI G V G D + + + KY + +H
Sbjct: 171 DENGKMRGMDLEKAIEEDKENGLIPFFVC--ATLGTTGSGAFDPLQELGDICNKYDLWLH 228
Query: 307 VDCCLGG--FLAPFMSAAGYPLPPFDFSLPGVTSISVDTHKYGFTPKGSSVVLYRD---- 360
VD G F+ P + F + S S + HK+ S + RD
Sbjct: 229 VDAAYAGSAFICPEFR-------HWLFGIERADSFSFNPHKWMLVLLDCSALWVRDKGAL 281
Query: 361 ----------LKYKHCQYFVTSDWP 375
L + Q V D+
Sbjct: 282 QQALQFNPEYLGHNDKQSDVAVDYG 306
>gnl|CDD|235068 PRK02769, PRK02769, histidine decarboxylase; Provisional.
Length = 380
Score = 71.2 bits (175), Expect = 1e-13
Identities = 62/245 (25%), Positives = 103/245 (42%), Gaps = 34/245 (13%)
Query: 175 KMEAEVIKMCARMFN-GGPETCGCMTSGGTESIMMACKAYRDYAREEKGISLPEIVL--P 231
E +V+ A +F E+ G +T+GGTE + C R+ P+ L
Sbjct: 65 DFERDVMNFFAELFKIPFNESWGYITNGGTEGNLYGCYLAREL--------FPDGTLYYS 116
Query: 232 TTAHPAFDKAANYFGMKVKHIRLTSSYTVDLAALQSAITGNT---VMLVGSMPNFPYGTM 288
H + K A +K + I + +D L S I N ++ ++ G +
Sbjct: 117 KDTHYSVSKIARLLRIKSRVITSLPNGEIDYDDLISKIKENKNQPPIIFANIGTTMTGAI 176
Query: 289 DDIGAIAKLGEKYGIP---VHVDCCLGGFLAPFMSAAGYPLPPFDFSLPGVTSISVDTHK 345
D+I I ++ +K GI +H D L G + PF++ PPF F+ G+ SI++ HK
Sbjct: 177 DNIKEIQEILKKIGIDDYYIHADAALSGMILPFVN----NPPPFSFA-DGIDSIAISGHK 231
Query: 346 YGFTPKGSSVVL----YRDLKYKHCQYFVTSDWPGGNYGSPSVSGSRSGGIIATCWAAMM 401
+ +P +VL Y + Y + D ++SGSR+G WAA+
Sbjct: 232 FIGSPMPCGIVLAKKKYVERISVDVDYIGSRD--------QTISGSRNGHTALLLWAAIR 283
Query: 402 YFGFE 406
G +
Sbjct: 284 SLGSK 288
>gnl|CDD|224029 COG1104, NifS, Cysteine sulfinate desulfinase/cysteine desulfurase
and related enzymes [Amino acid transport and
metabolism].
Length = 386
Score = 69.5 bits (171), Expect = 6e-13
Identities = 48/171 (28%), Positives = 68/171 (39%), Gaps = 29/171 (16%)
Query: 199 TSGGTESIMMACK-AYRDYAREEKGISLPEIVLPTTAHPAFDKAANY---FGMKVKHIRL 254
TSG TES +A K A Y +KG I+ HPA Y G +V ++ +
Sbjct: 67 TSGATESNNLAIKGAALAYRNAQKG---KHIITSAIEHPAVLNTCRYLERQGFEVTYLPV 123
Query: 255 TSSYTVDLAALQSAITGNT----VMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCC 310
S+ VDL L+ A+ +T +M + GT+ I I ++ ++ GI HVD
Sbjct: 124 DSNGLVDLEQLEEALRPDTILVSIMHANNE----TGTIQPIAEIGEICKERGILFHVDA- 178
Query: 311 LGGFLAPFMSAAGYPLPPFDFSLPGVTSISVDTHK-YGFTPKGSSVVLYRD 360
P D GV +S HK G PKG + R
Sbjct: 179 ----------VQAVGKIPIDLEELGVDLLSFSAHKFGG--PKGIGALYVRP 217
>gnl|CDD|223594 COG0520, csdA, Selenocysteine lyase/Cysteine desulfurase
[Posttranslational modification, protein turnover,
chaperones].
Length = 405
Score = 68.9 bits (169), Expect = 1e-12
Identities = 45/178 (25%), Positives = 69/178 (38%), Gaps = 21/178 (11%)
Query: 185 ARMFNGGPETCGCMTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPA----FDK 240
AR N T G TE++ + + + EIV+ H + + +
Sbjct: 76 ARFLNADSSDEIVFTRGTTEALNLVARGLGRSLKPGD-----EIVVSDLEHHSNIVPWQE 130
Query: 241 AANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEK 300
A G KV+ I L +DL AL+ IT T ++ S + GT++ + IA+L +
Sbjct: 131 LAKRTGAKVRVIPLDDDGLLDLDALEKLITPKTKLVALSHVSNVTGTVNPVKEIAELAHE 190
Query: 301 YGIPVHVDCCLGGFLAPFMSAAGYPLPPFDFSLPGVTSISVDTHKYGFTPKGSSVVLY 358
+G V VD A P D G ++ HK+ P G VLY
Sbjct: 191 HGALVLVDA-----------AQAAGHLPIDVQELGCDFLAFSGHKWLLGPTGIG-VLY 236
>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 = 63.0 bits (154), Expect = 7e-11
Identities = 43/167 (25%), Positives = 69/167 (41%), Gaps = 23/167 (13%)
Query: 199 TSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPA----FDKAANYFGMKVKHIRL 254
TSG TE+I + + + EI++ H A + + A G V+ I +
Sbjct: 67 TSGTTEAINLVAISLGRSLKPGD-----EILVTEMEHHANLVPWQELAKRTGATVRVIPV 121
Query: 255 TSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCCLGGF 314
+ +DL AL+ +T T ++ + + GT++ + I KL +YG V VD
Sbjct: 122 DPNGLLDLDALEKLLTPRTKLVAITHVSNVTGTVNPVEEIGKLAHEYGALVVVD------ 175
Query: 315 LAPFMSAAGYPLPPFDFSLPGVTSISVDTHK-YGFTPKGSSVVLYRD 360
+A P D GV ++ HK YG P G V+ R
Sbjct: 176 -----AAQAVGHRPIDVQALGVDFLAFSGHKLYG--PTGIGVLYGRR 215
>gnl|CDD|166673 PLN03032, PLN03032, serine decarboxylase; Provisional.
Length = 374
Score = 58.3 bits (141), Expect = 3e-09
Identities = 63/265 (23%), Positives = 107/265 (40%), Gaps = 53/265 (20%)
Query: 175 KMEAEVIKMCARMFNGGPE-------TCGCMTSGGTESIMMACKAYRDYAREEKGISLPE 227
+ E V+ AR++ + TCG T G I++ RE P+
Sbjct: 66 QFEVGVLDWFARLWELEKDEYWGYITTCG--TEGNLHGILVG--------RE----VFPD 111
Query: 228 IVLPTT--AHPAFDKAANYFGMKVKHIRLTSSYTVDLAALQSAITGNT---VMLVGSMPN 282
+L + +H + KAA + M+ + S +D L+ A+ N +L ++
Sbjct: 112 GILYASRESHYSVFKAARMYRMEAVKVPTLPSGEIDYDDLERALAKNRDKPAILNVNIGT 171
Query: 283 FPYGTMDDIGAIAKLGEKYGIP-----VHVDCCLGGFLAPFMSAAGYPLPPFDFSLPGVT 337
G +DD+ I ++ ++ G +H D L G + PF+S A P F P +
Sbjct: 172 TVKGAVDDLDRILRILKELGYTEDRFYIHCDGALFGLMMPFVSRA----PEVTFRKP-IG 226
Query: 338 SISVDTHKYGFTPKGSSVVLYRDLKY-----KHCQYFVTSDWPGGNYGSPSVSGSRSGGI 392
S+SV HK+ P V L R K+ ++ +Y + D ++ GSR+G
Sbjct: 227 SVSVSGHKFLGCPMPCGVALTR-KKHVKALSQNVEYLNSRD--------ATIMGSRNGHA 277
Query: 393 IATCWAAMM---YFGFEAQVWICVR 414
W + Y G + V C+R
Sbjct: 278 PLYLWYTLRRKGYRGIKRDVQHCMR 302
>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 = 51.4 bits (123), Expect = 5e-07
Identities = 45/159 (28%), Positives = 69/159 (43%), Gaps = 23/159 (14%)
Query: 199 TSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYF---GMKVKHIRLT 255
TSG TES +A K + + + I+ T H A Y G +V ++
Sbjct: 70 TSGATESNNLAIKGIAHFYKSKGN----HIITSKTEHKAVLDTCRYLEREGFEVTYLPPK 125
Query: 256 SSYTVDLAALQSAITGNTVMLVGSMP-NFPYGTMDDIGAIAKLGEKYGIPVHVDCCLGGF 314
S+ +DL L++AI +T+ LV M N G + DI AI ++ + + HVD
Sbjct: 126 SNGLIDLEELKAAIRDDTI-LVSIMHVNNEIGVIQDIAAIGEICRERKVFFHVD------ 178
Query: 315 LAPFMSAAGYPLPPFDFSLPGVTSISVDTHK-YGFTPKG 352
+A P + + V +S+ HK YG PKG
Sbjct: 179 -----AAQSVGKIPINVNELKVDLMSISGHKIYG--PKG 210
>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 = 50.5 bits (122), Expect = 8e-07
Identities = 32/136 (23%), Positives = 52/136 (38%), Gaps = 21/136 (15%)
Query: 185 ARMFNGGPETCGCMTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANY 244
AR N T TE+I + + G EIV H +N
Sbjct: 53 ARFINAPSPDEIIFTRNTTEAINLVAYGLG--RANKPG---DEIVTSVMEH-----HSNI 102
Query: 245 F---------GMKVKHIRLTSSYTVDLAALQSAITGNTVML-VGSMPNFPYGTMDDIGAI 294
G K+K + + +DL AL+ +T T ++ V + N GT++ + I
Sbjct: 103 VPWQQLAERTGAKLKVVPVDDDGQLDLEALEKLLTERTKLVAVTHVSNV-LGTINPVKEI 161
Query: 295 AKLGEKYGIPVHVDCC 310
++ + G+PV VD
Sbjct: 162 GEIAHEAGVPVLVDGA 177
>gnl|CDD|234769 PRK00451, PRK00451, glycine dehydrogenase subunit 1; Validated.
Length = 447
Score = 50.5 bits (122), Expect = 8e-07
Identities = 28/112 (25%), Positives = 49/112 (43%), Gaps = 19/112 (16%)
Query: 198 MTSGGT---ESIMMACKAYRDYAREEKGISLPEIVLPTTAHP-AFDKAANYF---GMKVK 250
M G T E+ +MA R K ++++ HP + Y G++V
Sbjct: 134 MYDGATALAEAALMAV-------RITKR---KKVLVSGAVHPEYREVLKTYLKGQGIEVV 183
Query: 251 HIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYG 302
+ DL AL++A+ +T +V PNF +G ++D+ IA++ G
Sbjct: 184 EVPYEDG-VTDLEALEAAVDDDTAAVVVQYPNF-FGVIEDLEEIAEIAHAGG 233
>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 = 50.3 bits (121), Expect = 8e-07
Identities = 40/116 (34%), Positives = 56/116 (48%), Gaps = 14/116 (12%)
Query: 199 TSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTA--HPAFDKAANYF---GMKVKHIR 253
TSGGTES A K+ A+ EK I+ TTA HPA + G KV ++
Sbjct: 65 TSGGTESDNTAIKSAL-AAQPEKR----HII--TTAVEHPAVLSLCQHLEKQGYKVTYLP 117
Query: 254 LTSSYTVDLAALQSAITGNTVMLVGSM-PNFPYGTMDDIGAIAKLGEKYGIPVHVD 308
+ +DL L++AIT +T LV M N GT+ I I ++ ++ G H D
Sbjct: 118 VDEEGRLDLEELRAAITDDTA-LVSVMWANNETGTIFPIEEIGEIAKERGALFHTD 172
>gnl|CDD|178257 PLN02651, PLN02651, cysteine desulfurase.
Length = 364
Score = 50.0 bits (120), Expect = 1e-06
Identities = 42/161 (26%), Positives = 64/161 (39%), Gaps = 27/161 (16%)
Query: 199 TSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYF---GMKVKHIRLT 255
TSG TES +A K + +++K ++ T H + + G +V ++ +
Sbjct: 66 TSGATESNNLAIKGVMHFYKDKK----KHVITTQTEHKCVLDSCRHLQQEGFEVTYLPVK 121
Query: 256 SSYTVDLAALQSAITGNT----VMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCCL 311
S VDL L +AI +T VM V N G + + I +L + + H D
Sbjct: 122 SDGLVDLDELAAAIRPDTALVSVMAV----NNEIGVIQPVEEIGELCREKKVLFHTDAA- 176
Query: 312 GGFLAPFMSAAGYPLPPFDFSLPGVTSISVDTHKYGFTPKG 352
A G P D GV +S+ HK PKG
Sbjct: 177 --------QAVGK--IPVDVDDLGVDLMSISGHKIY-GPKG 206
>gnl|CDD|188123 TIGR01265, tyr_nico_aTase, tyrosine/nicotianamine family
aminotransferase. This subfamily of pyridoxal
phosphate-dependent enzymes includes known examples of
both tyrosine aminotransferase from animals and
nicotianamine aminotransferase from barley.
Length = 403
Score = 48.9 bits (117), Expect = 3e-06
Identities = 38/145 (26%), Positives = 67/145 (46%), Gaps = 15/145 (10%)
Query: 198 MTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYFGMKVKHIRL--T 255
+TSG +++I + +A + I++P P +D A + G++V+ L
Sbjct: 101 LTSGCSQAIEICIEALANPGAN--------ILVPRPGFPLYDTRAAFSGLEVRLYDLLPE 152
Query: 256 SSYTVDLAALQSAITGNTVMLVGSMPNFPYG---TMDDIGAIAKLGEKYGIPVHVDCCLG 312
+ +DL L+S TV +V P+ P G + D + IA++ EK GIP+ D G
Sbjct: 153 KDWEIDLDGLESLADEKTVAIVVINPSNPCGSVFSRDHLQKIAEVAEKLGIPIIADEIYG 212
Query: 313 GFLAPFMSAAGYPLPPFDFSLPGVT 337
+ F A P+ F +P ++
Sbjct: 213 HMV--FGDAPFIPMASFASIVPVLS 235
>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 = 48.1 bits (115), Expect = 4e-06
Identities = 28/118 (23%), Positives = 59/118 (50%), Gaps = 15/118 (12%)
Query: 197 CMTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYFGMKVKHIRLTS 256
+T+G E++ + +A + E+++P +P ++ AA G +V + L
Sbjct: 63 VVTNGAQEALSLLLRALLNPGD--------EVLVPDPTYPGYEAAARLAGAEVVPVPLDE 114
Query: 257 SYT--VDLAALQSAITGNT-VMLVGSMPNFPYG---TMDDIGAIAKLGEKYGIPVHVD 308
+DL L++A T T ++ + + PN P G + +++ +A+L +K+GI + D
Sbjct: 115 EGGFLLDLELLEAAKTPKTKLLYLNN-PNNPTGAVLSEEELEELAELAKKHGILIISD 171
>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 = 47.5 bits (113), Expect = 7e-06
Identities = 47/166 (28%), Positives = 67/166 (40%), Gaps = 22/166 (13%)
Query: 199 TSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYF---GMKVKHIRLT 255
TSG TES +A E+KG I+ HPA + G V ++ +
Sbjct: 65 TSGATESNNLAILGLARAG-EQKGKK--HIITSAIEHPAVLEPIRALERNGFTVTYLPVD 121
Query: 256 SSYTVDLAALQSAITGNTVMLVGSMP-NFPYGTMDDIGAIAKLGEKYGIPVHVDCCLGGF 314
S +D+ L AI +T +LV M N G++ I IA++ E + HVD
Sbjct: 122 ESGRIDVDELADAIRPDT-LLVSIMHVNNETGSIQPIREIAEVLEAHEAFFHVD------ 174
Query: 315 LAPFMSAAGYPLPPFDFSLPGVTSISVDTHK-YGFTPKGSSVVLYR 359
+A D S + IS HK YG PKG ++ R
Sbjct: 175 -----AAQVVGKITVDLSADRIDLISCSGHKIYG--PKGIGALVIR 213
>gnl|CDD|184450 PRK14012, PRK14012, cysteine desulfurase; Provisional.
Length = 404
Score = 47.2 bits (113), Expect = 9e-06
Identities = 47/159 (29%), Positives = 69/159 (43%), Gaps = 23/159 (14%)
Query: 199 TSGGTESIMMACK-AYRDYAREEKGISLPEIVLPTTAHPAFDKAANYF---GMKVKHIRL 254
TSG TES +A K A Y ++ K I+ T H A G +V ++
Sbjct: 72 TSGATESDNLAIKGAAHFYQKKGK-----HIITSKTEHKAVLDTCRQLEREGFEVTYLDP 126
Query: 255 TSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCCLGGF 314
S+ +DL L++A+ +T+++ N G + DI AI ++ + GI HVD
Sbjct: 127 QSNGIIDLEKLEAAMRDDTILVSIMHVNNEIGVIQDIAAIGEICRERGIIFHVD------ 180
Query: 315 LAPFMSAAGYPLPPFDFSLPGVTSISVDTHK-YGFTPKG 352
+A P D S V +S HK YG PKG
Sbjct: 181 -----AAQSVGKVPIDLSKLKVDLMSFSAHKIYG--PKG 212
>gnl|CDD|178200 PLN02590, PLN02590, probable tyrosine decarboxylase.
Length = 539
Score = 46.6 bits (110), Expect = 2e-05
Identities = 54/231 (23%), Positives = 107/231 (46%), Gaps = 31/231 (13%)
Query: 108 PSQGRNRLEILELVSNYLARGHYDWK------HGRVSGAVYYYQQDLVDLLTEVFGLTSY 161
P + + E+L+ VS + G W+ + S +V + ++++ V G T
Sbjct: 104 PERPESLKELLDDVSKKIMPGITHWQSPSYFAYYASSTSVAGFLGEMLNAGLSVVGFTWL 163
Query: 162 TNPLHPDIFPGVCKMEAEVIKMCARMF---NGGPETCGCMTSGGTESIMMACKAYRDYAR 218
T+P ++ V A+++++ NGG G + G E++++ A RD
Sbjct: 164 TSPAATELEIIVLDWLAKLLQLPDHFLSTGNGG----GVIQGTGCEAVLVVVLAARDRIL 219
Query: 219 EEKGISL-PEIVLPTT--AHPAFDKAANYFGMKVKHIRL-----TSSYTVDLAALQSAIT 270
++ G +L P++V+ + H +F KA G+ ++IRL +++Y + +L+ AI+
Sbjct: 220 KKVGKTLLPQLVVYGSDQTHSSFRKACLIGGIHEENIRLLKTDSSTNYGMPPESLEEAIS 279
Query: 271 GNTVMLVGSMPNFPYGTM--------DDIGAIAKLGEKYGIPVHVDCCLGG 313
+ + G +P F T+ D + + + +KYGI +HVD G
Sbjct: 280 HD--LAKGFIPFFICATVGTTSSAAVDPLVPLGNIAKKYGIWLHVDAAYAG 328
>gnl|CDD|215756 pfam00155, Aminotran_1_2, Aminotransferase class I and II.
Length = 357
Score = 45.8 bits (109), Expect = 2e-05
Identities = 29/121 (23%), Positives = 53/121 (43%), Gaps = 17/121 (14%)
Query: 197 CMTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYFGMKVKHIRLTS 256
SG +I R G I++P +P++ + G +V L S
Sbjct: 69 VFGSGAGANIEALIFL----LRLNPG---DAILVPAPTYPSYIRIFRLAGGEVVRYPLYS 121
Query: 257 S--YTVDLAALQSAITGNT----VMLVGSMPNFPYGTM---DDIGAIAKLGEKYGIPVHV 307
S + +D AL++A+ T V+L S P+ P GT+ +++ + L +++ I + V
Sbjct: 122 SNDFHLDFDALEAALKEATEGNKVVLHTS-PHNPTGTVATLEELEKLLDLAKEHNILLLV 180
Query: 308 D 308
D
Sbjct: 181 D 181
>gnl|CDD|180404 PRK06108, PRK06108, aspartate aminotransferase; Provisional.
Length = 382
Score = 45.7 bits (109), Expect = 3e-05
Identities = 33/113 (29%), Positives = 50/113 (44%), Gaps = 18/113 (15%)
Query: 199 TSGGTESIMMACKAYRDYAREEKGISLP--EIVLPTTAHPAFDKAANYFGMKVKHIRL-- 254
TS G +++M+A +A P E+V T P A G +V + L
Sbjct: 90 TSSGVQALMLAAQALVG----------PGDEVVAVTPLWPNLVAAPKILGARVVCVPLDF 139
Query: 255 -TSSYTVDLAALQSAITGNTVMLVGSMPNFPYG---TMDDIGAIAKLGEKYGI 303
+T+DL L +AIT T L + PN P G + DD+ AI ++G+
Sbjct: 140 GGGGWTLDLDRLLAAITPRTRALFINSPNNPTGWTASRDDLRAILAHCRRHGL 192
>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 = 45.2 bits (107), Expect = 5e-05
Identities = 58/235 (24%), Positives = 98/235 (41%), Gaps = 56/235 (23%)
Query: 217 AREEKGIS-LPEIVLPTTAHPAFDKAANYFGM---KVKHIRLTSSYTVDLAALQSAITG- 271
AR K + L + ++P T H ++ KAA+ G+ +V + + S+Y +D+ L+ I
Sbjct: 213 ARSGKDLQKLGKWLVPQTKHYSWLKAADIIGIGLDQVIPVPVDSNYRMDINELEKIIRKL 272
Query: 272 --------NTVMLVGSMPNFPYGTMDDIGAIAKLGEKY---GIP--VHVDCCLGGF-LAP 317
V +VGS G +D I I L K GI +HVD GG+ A
Sbjct: 273 AAEKTPILGVVGVVGSTEE---GAVDGIDKIVALRNKLMKEGIYFYLHVDAAYGGYGRAI 329
Query: 318 FMSAAGYPLPPFDF--------------------------SLPGVTSISVDTHKYGFTPK 351
F+ +P D ++ S+++D HK G+ P
Sbjct: 330 FLDEDDNFIPYDDLQEVHAEYGVFTEKKEYISREVYNAYKAISEAESVTIDPHKMGYIPY 389
Query: 352 GSSVVLYRDLKYKHC-QYFVT------SDWPGGNYGSPSVSGSRSGGIIATCWAA 399
+ ++ +D++ + YF T +D P G+ + GS++G A+ WAA
Sbjct: 390 SAGGIVIQDIRMRDVISYFATYVFEKGADIP-ALLGAYILEGSKAGATAASVWAA 443
>gnl|CDD|179511 PRK02948, PRK02948, cysteine desulfurase; Provisional.
Length = 381
Score = 45.1 bits (107), Expect = 5e-05
Identities = 53/192 (27%), Positives = 76/192 (39%), Gaps = 36/192 (18%)
Query: 178 AEVIKMCARMFN---GGPETCGCMTSGGTESIMMA----CKAYRDYAREEKGISLPEIVL 230
+ ++++C + F GG E TSGGTES +A A + +
Sbjct: 42 SSLLQVCRKTFAEMIGGEEQGIYFTSGGTESNYLAIQSLLNALPQNKKH----------I 91
Query: 231 PTTA--HPAFDKAANYF---GMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPY 285
TT H + G V I + S + L L+ AIT +TV+ N
Sbjct: 92 ITTPMEHASIHSYFQSLESQGYTVTEIPVDKSGLIRLVDLERAITPDTVLASIQHANSEI 151
Query: 286 GTMDDIGAIAKLGEKYGIPVHVDCCLGGFLAPFMSAAGYPLPPFDFSLPGVTSISVDTHK 345
GT+ I I L +KY + H DC + P+ F+ G+ S+SV HK
Sbjct: 152 GTIQPIAEIGALLKKYNVLFHSDCV--------QTFGKLPIDVFEM---GIDSLSVSAHK 200
Query: 346 -YGFTPKGSSVV 356
YG PKG V
Sbjct: 201 IYG--PKGVGAV 210
>gnl|CDD|223513 COG0436, COG0436, Aspartate/tyrosine/aromatic aminotransferase
[Amino acid transport and metabolism].
Length = 393
Score = 43.8 bits (104), Expect = 1e-04
Identities = 31/127 (24%), Positives = 59/127 (46%), Gaps = 18/127 (14%)
Query: 192 PETCGCMTSGGTESIMMACKAYRDYAREEKGISLP--EIVLPTTAHPAFDKAANYFGMKV 249
PE +T+G E++ +A A + P E+++P +P+++ A G K
Sbjct: 88 PEEEIIVTAGAKEALFLAFLALLN----------PGDEVLIPDPGYPSYEAAVKLAGGKP 137
Query: 250 KHIRLTSS---YTVDLAALQSAITGNTVMLVGSMPNFPYGTM---DDIGAIAKLGEKYGI 303
+ L + DL L++AIT T ++ + PN P G + +++ AI +L ++ I
Sbjct: 138 VPVPLDEEENGFKPDLEDLEAAITPKTKAIILNSPNNPTGAVYSKEELKAIVELAREHDI 197
Query: 304 PVHVDCC 310
+ D
Sbjct: 198 IIISDEI 204
>gnl|CDD|215074 PLN00145, PLN00145, tyrosine/nicotianamine aminotransferase;
Provisional.
Length = 430
Score = 43.6 bits (103), Expect = 1e-04
Identities = 31/118 (26%), Positives = 55/118 (46%), Gaps = 17/118 (14%)
Query: 198 MTSGGTESIMMACKAYRDYAREEKGISLP--EIVLPTTAHPAFDKAANYFGMKVKHIRLT 255
+T+G ++I + ++ P I+LP +P ++ A + G++V+H L
Sbjct: 122 LTAGCAQAIEIIMSV----------LAQPGANILLPRPGYPLYEARAVFSGLEVRHFDLL 171
Query: 256 --SSYTVDLAALQSAITGNTVMLVGSMPNFPYG---TMDDIGAIAKLGEKYGIPVHVD 308
+ VDL +++ NTV +V PN P G + + + IA+ K GI V D
Sbjct: 172 PERGWEVDLEGVEALADENTVAMVIINPNNPCGSVYSYEHLAKIAETARKLGILVIAD 229
>gnl|CDD|216261 pfam01041, DegT_DnrJ_EryC1, DegT/DnrJ/EryC1/StrS aminotransferase
family. The members of this family are probably all
pyridoxal-phosphate-dependent aminotransferase enzymes
with a variety of molecular functions. The family
includes StsA, StsC and StsS. The aminotransferase
activity was demonstrated for purified StsC protein as
the L-glutamine:scyllo-inosose aminotransferase
EC:2.6.1.50, which catalyzes the first amino transfer in
the biosynthesis of the streptidine subunit of
streptomycin.
Length = 362
Score = 42.6 bits (101), Expect = 3e-04
Identities = 19/56 (33%), Positives = 31/56 (55%), Gaps = 7/56 (12%)
Query: 257 SYTVDLAALQSAITGNT--VMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCC 310
+Y +D AA+++AIT T +M V + YG D+ AI + ++G+PV D
Sbjct: 97 TYNIDPAAIEAAITPRTKAIMPV-HL----YGQPADMDAIRAIAAEHGLPVIEDAA 147
>gnl|CDD|178262 PLN02656, PLN02656, tyrosine transaminase.
Length = 409
Score = 42.6 bits (100), Expect = 3e-04
Identities = 33/118 (27%), Positives = 55/118 (46%), Gaps = 17/118 (14%)
Query: 198 MTSGGTESIMMACKAYRDYAREEKGISLP--EIVLPTTAHPAFDKAANYFGMKVKHIRL- 254
+TSG T++I +A ++ P I+LP P ++ A + ++V+++ L
Sbjct: 101 ITSGCTQAIDVALSM----------LARPGANILLPRPGFPIYELCAAFRHLEVRYVDLL 150
Query: 255 -TSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTM---DDIGAIAKLGEKYGIPVHVD 308
+ VDL A+++ NTV LV P P G + + IA+ EK I V D
Sbjct: 151 PEKGWEVDLDAVEALADQNTVALVIINPGNPCGNVYSYQHLKKIAETAEKLKILVIAD 208
>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 = 42.8 bits (101), Expect = 3e-04
Identities = 33/126 (26%), Positives = 56/126 (44%), Gaps = 25/126 (19%)
Query: 286 GTMDDIGAIAKLGEKYGIPVHVDCCLGGFLAPFMSAAGYPLPPFDFSLPGVT---SISVD 342
G +D + +A + ++ G HVD GG A +S L L G+ S+++D
Sbjct: 279 GNIDPLDEMADIAQELGCHFHVDAAWGG--ATLLSNTYRHL------LKGIERADSVTID 330
Query: 343 THKYGFTPKGSSVVLYRDLKY-----KHCQYFVTSDWPGGNYGSPSVSGSRSGGIIATCW 397
HK + P G+ +VL++D H +Y + + GS ++ GSR G
Sbjct: 331 AHKQLYVPMGAGMVLFKDPALMSAIEHHAEYILRKG--SKDLGSHTLEGSRPG------- 381
Query: 398 AAMMYF 403
AM+ +
Sbjct: 382 MAMLVY 387
>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 = 42.3 bits (100), Expect = 3e-04
Identities = 48/166 (28%), Positives = 67/166 (40%), Gaps = 25/166 (15%)
Query: 199 TSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPA----FDKAANYFGMKVKHIRL 254
T G TESI + ++ D + + G EIV+ H A + A G +K I L
Sbjct: 86 TRGTTESINLVAYSWGD-SNLKAG---DEIVISEMEHHANIVPWQLLAERTGATLKFIPL 141
Query: 255 TSSYTVDLAALQSAITGNT-VMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCCLGG 313
T+DL L+ +T T ++ + + N GT++ + IAKL + G V VD
Sbjct: 142 DDDGTLDLDDLEKLLTEKTKLVAITHVSNV-LGTVNPVEEIAKLAHQVGAKVLVDGAQA- 199
Query: 314 FLAPFMSAAGYPLPPFDFSLPGVTSISVDTHK-YGFTPKGSSVVLY 358
P M P D HK YG T G VLY
Sbjct: 200 --VPHM--------PVDVQALDCDFYVFSGHKMYGPTGIG---VLY 232
>gnl|CDD|215119 PLN02187, PLN02187, rooty/superroot1.
Length = 462
Score = 42.4 bits (99), Expect = 4e-04
Identities = 27/86 (31%), Positives = 42/86 (48%), Gaps = 5/86 (5%)
Query: 228 IVLPTTAHPAFDKAANYFGMKVKHIRL--TSSYTVDLAALQSAITGNTVMLVGSMPNFPY 285
I+LP P +D A Y G++V+ L + +DL +++ NTV +V PN P
Sbjct: 158 ILLPRPGFPHYDARAAYSGLEVRKFDLLPEKEWEIDLEGIEAIADENTVAMVVINPNNPC 217
Query: 286 GTM---DDIGAIAKLGEKYGIPVHVD 308
G + D + +A+ K GI V D
Sbjct: 218 GNVYSHDHLKKVAETARKLGIMVISD 243
>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 = 41.8 bits (98), Expect = 5e-04
Identities = 39/160 (24%), Positives = 62/160 (38%), Gaps = 21/160 (13%)
Query: 198 MTSGGTESIMMACKA-YRDYARE-EKGISLPEIVLPTTAHPAFDKAANYF---GMKVKHI 252
+TS TES K Y D + K I+ HPA + G++V ++
Sbjct: 65 ITSCATESNNWVLKGVYFDEILKGGKN----HIITTEVEHPAVRATCAFLESLGVEVTYL 120
Query: 253 RLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCCLG 312
+ T+ ++ AIT T ++ N G + I I ++ ++ G+ H D
Sbjct: 121 PINEQGTITAEQVREAITEKTALVSVMWANNETGMIFPIKEIGEICKERGVLFHTDA--- 177
Query: 313 GFLAPFMSAAGYPLPPFDFSLPGVTSISVDTHKYGFTPKG 352
+ A G P D GV +S HK+ PKG
Sbjct: 178 ------VQAIGK--IPVDVQKAGVDFLSFSAHKF-HGPKG 208
>gnl|CDD|216267 pfam01053, Cys_Met_Meta_PP, Cys/Met metabolism PLP-dependent
enzyme. This family includes enzymes involved in
cysteine and methionine metabolism. The following are
members: Cystathionine gamma-lyase, Cystathionine
gamma-synthase, Cystathionine beta-lyase, Methionine
gamma-lyase, OAH/OAS sulfhydrylase, O-succinylhomoserine
sulfhydrylase All of these members participate is
slightly different reactions. All these enzymes use PLP
(pyridoxal-5'-phosphate) as a cofactor.
Length = 382
Score = 41.4 bits (98), Expect = 7e-04
Identities = 28/80 (35%), Positives = 41/80 (51%), Gaps = 8/80 (10%)
Query: 238 FDKAANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKL 297
F+K FG++V + + DL AL++AI NT + P P + DI AIAK+
Sbjct: 108 FEKVLPRFGIEVTFVDPS-----DLDALEAAIKPNTKAVFLETPTNPLLKVVDIEAIAKI 162
Query: 298 GEKYGIPVHVDCCLGGFLAP 317
+K+G V VD F +P
Sbjct: 163 AKKHGALVVVDNT---FASP 179
>gnl|CDD|181005 PRK07503, PRK07503, methionine gamma-lyase; Provisional.
Length = 403
Score = 40.6 bits (95), Expect = 0.001
Identities = 24/64 (37%), Positives = 35/64 (54%), Gaps = 5/64 (7%)
Query: 245 FGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIP 304
FG+ V+H+ LT D AAL++AI+ T M+ P P + DI A+A++ G
Sbjct: 128 FGVTVRHVDLT-----DPAALKAAISDKTRMVYFETPANPNMRLVDIAAVAEIAHGAGAK 182
Query: 305 VHVD 308
V VD
Sbjct: 183 VVVD 186
>gnl|CDD|165711 PLN00143, PLN00143, tyrosine/nicotianamine aminotransferase;
Provisional.
Length = 409
Score = 40.0 bits (93), Expect = 0.002
Identities = 35/128 (27%), Positives = 59/128 (46%), Gaps = 9/128 (7%)
Query: 221 KGISLPE--IVLPTTAHPAFDKAANYFGMKVKHIRL--TSSYTVDLAALQSAITGNTVML 276
K ++ PE I+LP P + A + ++++H L + VDL A+++ NT+ +
Sbjct: 115 KVLARPEANILLPRPGFPDVETYAIFHHLEIRHFDLLPEKGWEVDLDAVEAIADENTIAM 174
Query: 277 VGSMPNFPYG---TMDDIGAIAKLGEKYGIPVHVDCCLGGFLAPFMSAAGYPLPPFDFSL 333
V P P G + + + IA+ K GI V D G + F S P+ F +
Sbjct: 175 VIINPGNPCGSVYSYEHLNKIAETARKLGILVIADEVYGHIV--FGSKPFVPMGLFASIV 232
Query: 334 PGVTSISV 341
P +T S+
Sbjct: 233 PVITLGSI 240
>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 = 39.2 bits (92), Expect = 0.004
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 7/56 (12%)
Query: 257 SYTVDLAALQSAITGNT--VMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCC 310
+ +D +++AIT T ++ V G D+ AI L +++G+PV D
Sbjct: 107 TLNIDPDLIEAAITPRTKAIIPVHL-----AGQPCDMDAIMALAKRHGLPVIEDAA 157
>gnl|CDD|99740 cd00616, AHBA_syn, 3-amino-5-hydroxybenzoic acid synthase family
(AHBA_syn). AHBA_syn family belongs to pyridoxal
phosphate (PLP)-dependent aspartate aminotransferase
superfamily (fold I). The members of this CD are
involved in various biosynthetic pathways for secondary
metabolites. Some well studied proteins in this CD are
AHBA_synthase, protein product of pleiotropic regulatory
gene degT, Arnb aminotransferase and pilin
glycosylation protein. The prototype of this family, the
AHBA_synthase, is a dimeric PLP dependent enzyme.
AHBA_syn is the terminal enzyme of
3-amino-5-hydroxybenzoic acid (AHBA) formation which is
involved in the biosynthesis of ansamycin antibiotics,
including rifamycin B. Some members of this CD are
involved in 4-amino-6-deoxy-monosaccharide D-perosamine
synthesis. Perosamine is an important element in the
glycosylation of several cell products, such as
antibiotics and lipopolysaccharides of gram-positive and
gram-negative bacteria. The pilin glycosylation protein
encoded by gene pglA, is a galactosyltransferase
involved in pilin glycosylation. Additionally, this CD
consists of ArnB (PmrH) aminotransferase, a
4-amino-4-deoxy-L-arabinose lipopolysaccharide-modifying
enzyme. This CD also consists of several predicted
pyridoxal phosphate-dependent enzymes apparently
involved in regulation of cell wall biogenesis. The
catalytic lysine which is present in all characterized
PLP dependent enzymes is replaced by histidine in some
members of this CD.
Length = 352
Score = 39.1 bits (92), Expect = 0.004
Identities = 34/164 (20%), Positives = 60/164 (36%), Gaps = 59/164 (35%)
Query: 178 AEVIKMCARMFNGGPET----------CGC----MTSGGTESIMMACKAYRDYAREEKGI 223
EV+ GP+ G S GT ++ +A +A GI
Sbjct: 6 EEVLDS--GWLTLGPKVREFEKAFAEYLGVKYAVAVSSGTAALHLALRA--------LGI 55
Query: 224 SLP--EIVLPT-----TAHPAFDKAANYFGMKVKHIRLT--------SSYTVDLAALQSA 268
P E+++P+ TA+ + T +Y +D +++A
Sbjct: 56 G-PGDEVIVPSFTFVATANAIL------------LLGATPVFVDIDPDTYNIDPELIEAA 102
Query: 269 ITGNT--VMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCC 310
IT T ++ V + YG D+ AI + +++G+PV D
Sbjct: 103 ITPRTKAIIPV----HL-YGNPADMDAIMAIAKRHGLPVIEDAA 141
>gnl|CDD|180344 PRK05994, PRK05994, O-acetylhomoserine
aminocarboxypropyltransferase; Validated.
Length = 427
Score = 38.9 bits (91), Expect = 0.004
Identities = 20/51 (39%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 259 TVDLAALQSAITGNT-VMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVD 308
D A+ + AIT T + + S+ N P GT+ DI AIA++ + G+P+ VD
Sbjct: 135 ADDPASFERAITPRTKAIFIESIAN-PGGTVTDIAAIAEVAHRAGLPLIVD 184
>gnl|CDD|188131 TIGR01325, O_suc_HS_sulf, O-succinylhomoserine sulfhydrylase. This
model describes O-succinylhomoserine sulfhydrylase, one
of several related pyridoxal phosphate-dependent enzymes
of cysteine and methionine metabolism. This enzyme is
part of an alternative pathway of homocysteine
biosynthesis, a step in methionine biosynthesis [Amino
acid biosynthesis, Aspartate family].
Length = 381
Score = 38.3 bits (89), Expect = 0.006
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 11/90 (12%)
Query: 238 FDKAANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKL 297
+ FG++ + T DL+A ++A+ NT + P+ P + DI A+A+L
Sbjct: 110 CSEILPRFGVQTVFVDGT-----DLSAWEAALKPNTKAVFVETPSNPLQELVDIAAVAEL 164
Query: 298 GEKYGIPVHVDCCLGGFLAPFMSAAGYPLP 327
G V VD F P + PL
Sbjct: 165 AHAAGAKVVVDNV---FATPLLQQ---PLK 188
>gnl|CDD|235596 PRK05764, PRK05764, aspartate aminotransferase; Provisional.
Length = 393
Score = 37.8 bits (89), Expect = 0.008
Identities = 26/115 (22%), Positives = 52/115 (45%), Gaps = 19/115 (16%)
Query: 199 TSGGTESIMMACKAYRDYAREEKGISLPEIVLPT---TAHPAFDKAANYFGMKVKHIRLT 255
T+G +++ A A D G E+++P ++P K A G +
Sbjct: 97 TTGAKQALYNAFMALLD-----PG---DEVIIPAPYWVSYPEMVKLA---GGVPVFVPTG 145
Query: 256 --SSYTVDLAALQSAITGNTVMLVGSMPNFPYGTM---DDIGAIAKLGEKYGIPV 305
+ + + + L++AIT T L+ + P+ P G + +++ AIA + ++ I V
Sbjct: 146 EENGFKLTVEQLEAAITPKTKALILNSPSNPTGAVYSPEELEAIADVAVEHDIWV 200
>gnl|CDD|236517 PRK09440, avtA, valine--pyruvate transaminase; Provisional.
Length = 416
Score = 37.9 bits (89), Expect = 0.009
Identities = 18/64 (28%), Positives = 28/64 (43%), Gaps = 8/64 (12%)
Query: 258 YTVDLAALQSAITGNTVMLVGSMPNFPYG---TMDDIGAIAKLGEKYGIPVHVDCCLGGF 314
Y VD L I +T + S P P G T +++ + L ++ IP+ +D G
Sbjct: 167 YHVDFEHL--HIDEDTGAICVSRPTNPTGNVLTDEELEKLDALARQHNIPLLIDNAYG-- 222
Query: 315 LAPF 318
PF
Sbjct: 223 -PPF 225
>gnl|CDD|181244 PRK08133, PRK08133, O-succinylhomoserine sulfhydrylase; Validated.
Length = 390
Score = 37.7 bits (88), Expect = 0.010
Identities = 22/73 (30%), Positives = 36/73 (49%), Gaps = 5/73 (6%)
Query: 238 FDKAANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKL 297
F+K FG++ + LT DL A ++A+ NT + P+ P + DI A+A++
Sbjct: 117 FEKIFARFGIETTFVDLT-----DLDAWRAAVRPNTKLFFLETPSNPLTELADIAALAEI 171
Query: 298 GEKYGIPVHVDCC 310
G + VD C
Sbjct: 172 AHAAGALLVVDNC 184
>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 = 37.6 bits (88), Expect = 0.011
Identities = 28/98 (28%), Positives = 43/98 (43%), Gaps = 12/98 (12%)
Query: 228 IVLPTTAHPAFDKAANYFGMKVKHIRLT---SSYTVDLAALQSAI-TGNTVMLVGSMPNF 283
+V+ T +P F A G KV L Y +D AL+ A + + P+
Sbjct: 110 VVIQTPVYPPFYNAIKLNGRKVIENPLVEDDGRYEIDFDALEKAFVDERVKLFILCNPHN 169
Query: 284 PYG---TMDDIGAIAKLGEKYGIPV-----HVDCCLGG 313
P G T +++ IA+L ++G+ V H D LGG
Sbjct: 170 PTGRVWTKEELRKIAELCLRHGVRVISDEIHADLVLGG 207
>gnl|CDD|181320 PRK08247, PRK08247, cystathionine gamma-synthase; Reviewed.
Length = 366
Score = 37.4 bits (87), Expect = 0.011
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 3/76 (3%)
Query: 245 FGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIP 304
K ++R T L A++ AIT NT + P P DI AIAK+ +K+G+
Sbjct: 109 EHWKKWNVRFVYVNTASLKAIEQAITPNTKAIFIETPTNPLMQETDIAAIAKIAKKHGLL 168
Query: 305 VHVDCCLGGFLAPFMS 320
+ VD F P +
Sbjct: 169 LIVD---NTFYTPVLQ 181
>gnl|CDD|188122 TIGR01264, tyr_amTase_E, tyrosine aminotransferase, eukaryotic.
This model describes tyrosine aminotransferase as found
in animals and Trypanosoma cruzi. It is the first enzyme
of a pathway of tyrosine degradation via homogentisate.
Several plant enzyme designated as probable tyrosine
aminotransferases are very closely related to an
experimentally demonstrated nicotianamine
aminotransferase, an enzyme in a siderophore (iron
uptake chelator) biosynthesis pathway. These plant
sequences are excluded from the model seed and score
between the trusted an noise cutoffs [Energy metabolism,
Amino acids and amines].
Length = 401
Score = 37.5 bits (87), Expect = 0.013
Identities = 35/148 (23%), Positives = 66/148 (44%), Gaps = 21/148 (14%)
Query: 198 MTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYFGMKVK--HIRLT 255
+ SG + +I M A + + I++P P + A G++VK ++
Sbjct: 100 LCSGCSHAIEMCIAALANAGQN--------ILVPRPGFPLYRTLAESMGIEVKLYNLLPD 151
Query: 256 SSYTVDLAALQSAITGNTVMLVGSMPNFPYGT------MDDIGAIAKLGEKYGIPVHVDC 309
S+ +DL L+S I T LV + P+ P G+ +++I A+A E+ +P+ D
Sbjct: 152 KSWEIDLKQLESLIDEKTAALVVNNPSNPCGSVFSRQHLEEILAVA---ERQCLPIIADE 208
Query: 310 CLGGFLAPFMSAAGYPLPPFDFSLPGVT 337
G + F A P+ ++P ++
Sbjct: 209 IYGDMV--FSGATFEPVASLSSNVPILS 234
>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 = 37.2 bits (87), Expect = 0.013
Identities = 24/87 (27%), Positives = 37/87 (42%), Gaps = 6/87 (6%)
Query: 228 IVLPTTAHPAFDK----AANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNF 283
+++P +AHP G++V + TVDL AL+ ++ L+ PN
Sbjct: 111 VLVPDSAHPTNPAVARTRGEPLGIEVVEVPSDEGGTVDLEALKEEVSEEVAALMVQYPNT 170
Query: 284 PYGTM-DDIGAIAKLGEKYGIPVHVDC 309
G D I IA + G V+VD
Sbjct: 171 -LGVFEDLIKEIADIAHSAGALVYVDG 196
>gnl|CDD|99745 cd06452, SepCysS, Sep-tRNA:Cys-tRNA synthase. This family belongs
to the pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). Cys-tRNA(Cys) is
produced by O-phosphoseryl-tRNA synthetase which ligates
O-phosphoserine (Sep) to tRNA(Cys), and
Sep-tRNA:Cys-tRNA synthase (SepCysS) converts
Sep-tRNA(Cys) to Cys-tRNA(Cys), in methanogenic archaea.
SepCysS forms a dimer, each monomer is composed of a
large and small domain; the larger, a typical pyridoxal
5'-phosphate (PLP)-dependent-like enzyme fold. In the
active site of each monomer, PLP is covalently bound to
a conserved Lys residue near the dimer interface.
Length = 361
Score = 36.6 bits (85), Expect = 0.019
Identities = 22/98 (22%), Positives = 41/98 (41%), Gaps = 16/98 (16%)
Query: 213 YRDY-AREEKGISLPEIVLPTTAHPAFDKAANYFGMKVKHIRLTSSYTVDLAALQSAITG 271
Y Y A E G+++ E+ P T HP + + ++ ++ LA L
Sbjct: 94 YTSYVAAERAGLNVREV--PNTGHPEYHITPEGYAEVIEEVKDEFGKPPALALL------ 145
Query: 272 NTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDC 309
+ + YG + D IAK+ +YG+P+ ++
Sbjct: 146 -------THVDGNYGNLHDAKKIAKVCHEYGVPLLLNG 176
>gnl|CDD|179950 PRK05166, PRK05166, histidinol-phosphate aminotransferase;
Provisional.
Length = 371
Score = 36.7 bits (85), Expect = 0.020
Identities = 19/68 (27%), Positives = 34/68 (50%), Gaps = 3/68 (4%)
Query: 233 TAHPAFDKAANY---FGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMD 289
T +P+F +Y G +V+ + +T DL AL +A+ ML+ S P+ P G+
Sbjct: 117 TLYPSFPLHEDYPTMMGARVERVTVTPDLGFDLDALCAAVARAPRMLMFSNPSNPVGSWL 176
Query: 290 DIGAIAKL 297
+A++
Sbjct: 177 TADQLARV 184
>gnl|CDD|236104 PRK07811, PRK07811, cystathionine gamma-synthase; Provisional.
Length = 388
Score = 36.5 bits (85), Expect = 0.020
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 252 IRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVD 308
+ T DL A+++AIT T ++ P P ++ DI A+A+L G V VD
Sbjct: 126 VEYTPVDLSDLDAVRAAITPRTKLIWVETPTNPLLSITDIAALAELAHDAGAKVVVD 182
>gnl|CDD|235749 PRK06225, PRK06225, aspartate aminotransferase; Provisional.
Length = 380
Score = 36.7 bits (85), Expect = 0.021
Identities = 25/118 (21%), Positives = 46/118 (38%), Gaps = 14/118 (11%)
Query: 198 MTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYFGMKVKHIRLTSS 257
+T+G TES+ + R + P+ P D A+ FG +V + + S
Sbjct: 88 ITAGATESLYLVM---RAFLSPGDNAVTPD---PGYLII--DNFASRFGAEVIEVPIYSE 139
Query: 258 ---YTVDLAALQSAITGNTVMLVGSMPNFPYG---TMDDIGAIAKLGEKYGIPVHVDC 309
Y + ++ + NT ++ P P G T ++I A++ + DC
Sbjct: 140 ECNYKLTPELVKENMDENTRLIYLIDPLNPLGSSYTEEEIKEFAEIARDNDAFLLHDC 197
>gnl|CDD|235742 PRK06207, PRK06207, aspartate aminotransferase; Provisional.
Length = 405
Score = 36.3 bits (84), Expect = 0.029
Identities = 18/65 (27%), Positives = 31/65 (47%), Gaps = 3/65 (4%)
Query: 247 MKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYG---TMDDIGAIAKLGEKYGI 303
+++ ++ +DL L+ A + + S PN P G + ++I IA L +YG
Sbjct: 153 VQLDYLSADKRAGLDLDQLEEAFKAGVRVFLFSNPNNPAGVVYSAEEIAQIAALARRYGA 212
Query: 304 PVHVD 308
V VD
Sbjct: 213 TVIVD 217
>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 = 36.0 bits (84), Expect = 0.031
Identities = 21/58 (36%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 252 IRLTSSYTVDLAALQSAITGNT-VMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVD 308
I +T D AL++AI T ++ V S N P + DI AIA+L ++G + VD
Sbjct: 105 IEVTFVDPDDPEALEAAIKPETKLVYVESPTN-PTLKVVDIEAIAELAHEHGALLVVD 161
>gnl|CDD|236201 PRK08248, PRK08248, O-acetylhomoserine
aminocarboxypropyltransferase; Validated.
Length = 431
Score = 36.0 bits (83), Expect = 0.035
Identities = 20/64 (31%), Positives = 31/64 (48%), Gaps = 5/64 (7%)
Query: 245 FGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIP 304
G+ VK + + D ++AIT T L P G + DI A+A + ++GIP
Sbjct: 127 LGITVKFVDPS-----DPENFEAAITDKTKALFAETIGNPKGDVLDIEAVAAIAHEHGIP 181
Query: 305 VHVD 308
+ VD
Sbjct: 182 LIVD 185
>gnl|CDD|234872 PRK00950, PRK00950, histidinol-phosphate aminotransferase;
Validated.
Length = 361
Score = 35.7 bits (83), Expect = 0.038
Identities = 18/73 (24%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 227 EIVLPTTAHPAFDKAANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYG 286
E+++PT ++ +A G K + + +++D+ ++ +AIT T ++ PN P G
Sbjct: 113 EVIIPTPTFSYYEISAKAHGAKPVYAKREEDFSLDVDSVLNAITEKTKVIFLCTPNNPTG 172
Query: 287 TM---DDIGAIAK 296
+ +DI I +
Sbjct: 173 NLIPEEDIRKILE 185
>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 = 34.7 bits (80), Expect = 0.038
Identities = 33/188 (17%), Positives = 58/188 (30%), Gaps = 24/188 (12%)
Query: 177 EAEVIKMCARMFNGGPETCGCMTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHP 236
E+ + AR+ G + GT + A A G + +
Sbjct: 2 LEELEEKLARLLQPGNDK-AVFVPSGTGANEAALLALL-----GPGDEVIVDANGHGSRY 55
Query: 237 AFDKAANYFGMKVKHIRLTSSYTVDLAALQ---SAITGNTVMLVGSMPNFPYGTMDDIGA 293
AA G K + + + L N ++V + G + +
Sbjct: 56 WV--AAELAGAKPVPVPVDDAGYGGLDVAILEELKAKPNVALIVITPNTTSGGVLVPLKE 113
Query: 294 IAKLGEKYGIPVHVDCCLGGFLAPFMSAAGYPLP--PFDFSLPGVTSISVDTHKYGFTPK 351
I K+ ++YGI + VD A G +P D ++ HK +
Sbjct: 114 IRKIAKEYGILLLVD---AASAGGASPAPGVLIPEGGADV-------VTFSLHKN-LGGE 162
Query: 352 GSSVVLYR 359
G VV+ +
Sbjct: 163 GGGVVIVK 170
>gnl|CDD|225428 COG2873, MET17, O-acetylhomoserine sulfhydrylase [Amino acid
transport and metabolism].
Length = 426
Score = 35.0 bits (81), Expect = 0.071
Identities = 18/71 (25%), Positives = 29/71 (40%), Gaps = 9/71 (12%)
Query: 261 DLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCCLGGFLAPFMS 320
D ++AI NT + P + DI AIA++ ++G+P+ VD
Sbjct: 136 DPENFEAAIDENTKAVFAETIGNPGLDVLDIEAIAEIAHRHGVPLIVDNTF--------- 186
Query: 321 AAGYPLPPFDF 331
A Y P +
Sbjct: 187 ATPYLCRPIEH 197
>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 = 34.7 bits (80), Expect = 0.075
Identities = 15/63 (23%), Positives = 32/63 (50%)
Query: 246 GMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPV 305
G+++ ++ + + ++ AI NT ++V S + GT+ I I +L ++ GI
Sbjct: 111 GVEITIVKCDNEGLISPERIKRAIKTNTKLIVVSHASNVTGTILPIEEIGELAQENGIFF 170
Query: 306 HVD 308
+D
Sbjct: 171 ILD 173
>gnl|CDD|180720 PRK06836, PRK06836, aspartate aminotransferase; Provisional.
Length = 394
Score = 34.8 bits (81), Expect = 0.077
Identities = 19/61 (31%), Positives = 35/61 (57%), Gaps = 9/61 (14%)
Query: 255 TSSYTVDLAALQSAITGNT-VMLVGSMPNFPYG------TMDDIGAI-AKLGEKYGIPVH 306
T ++ DL AL++AIT T +++ S PN P G T+ + A+ + ++YG P++
Sbjct: 151 TDTFQPDLDALEAAITPKTKAVIINS-PNNPTGVVYSEETLKALAALLEEKSKEYGRPIY 209
Query: 307 V 307
+
Sbjct: 210 L 210
>gnl|CDD|233915 TIGR02539, SepCysS, O-phospho-L-seryl-tRNA:Cys-tRNA synthase.
Aminoacylation of tRNA(Cys) with Cys, and cysteine
biosynthesis in the process, happens in
Methanocaldococcus jannaschii and several other archaea
by misacylation of tRNA(Cys) with O-phosphoserine (Sep),
followed by modification of the phosphoserine to
cysteine. In some species, direct tRNA-cys
aminoacylation also occurs but this pathway is required
for Cys biosynthesis. Members of this protein catalyze
the second step in this two step pathway, using
pyridoxal phosphate and a sulfur donor to synthesize Cys
from Sep while attached to the tRNA.
Length = 370
Score = 34.4 bits (79), Expect = 0.090
Identities = 36/147 (24%), Positives = 58/147 (39%), Gaps = 31/147 (21%)
Query: 178 AEVIKM-CARMFNGGPETCGCMTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHP 236
AE + M AR+ +G E G ++M A D+ +VL AH
Sbjct: 61 AEFLGMDEARVTHGARE--------GKFAVMHALCKEGDW-----------VVLDGLAHY 101
Query: 237 AFDKAANYFGMKVKHIRLTS--SYTVDLAALQSAI-------TGNTVMLVGSMPNFPYGT 287
AA G+ VK + T Y VD I V+ + + + YG
Sbjct: 102 TSYVAAERAGLNVKEVPHTGHPEYKVDPEGYGEVIEEVEDESGKPPVLALLTHVDGEYGN 161
Query: 288 MDDIGAIAKLGEKYGIPVHVDC--CLG 312
+ D G +AK+ + G+P+ ++C +G
Sbjct: 162 LPDAGKVAKVCREKGVPLLLNCAYTVG 188
>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 = 34.6 bits (80), Expect = 0.11
Identities = 20/88 (22%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 227 EIVLPTTAHPAFDKAANYFGMK---VKHIRLTSSYTVDLAALQSAI----TGNTVMLVGS 279
++ P + KA + G + ++ + T D+ ++ AI N + ++ +
Sbjct: 153 YVIWPRIDQKSCIKAISTAGFEPRVIETVLDGDELTTDVEDIERAIEEIGPDNILCVLST 212
Query: 280 MPNFPYGTMDDIGAIAKLGEKYGIPVHV 307
F + DDI IAK+ Y IP H+
Sbjct: 213 TSCFAPRSPDDIEEIAKICANYDIP-HI 239
>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 = 34.1 bits (78), Expect = 0.12
Identities = 16/85 (18%), Positives = 33/85 (38%), Gaps = 7/85 (8%)
Query: 227 EIVLPTTAHPAFDKAANYFGMK---VKHIRLTSSYTVDLAALQSAIT---GNTVMLVGSM 280
++ P + KAA G + V+ + D+ +++ I ++ V S
Sbjct: 103 YVIWPRIDQKSSIKAAERAGFEPRLVETVLEGDYLITDVNDVETIIEEKGEEVILAVLST 162
Query: 281 PNFPYGTM-DDIGAIAKLGEKYGIP 304
+ D + IAK+ +Y +P
Sbjct: 163 TSCFAPRSPDRVKEIAKICAEYDVP 187
>gnl|CDD|181642 PRK09082, PRK09082, methionine aminotransferase; Validated.
Length = 386
Score = 34.1 bits (79), Expect = 0.14
Identities = 26/117 (22%), Positives = 44/117 (37%), Gaps = 40/117 (34%)
Query: 199 TSGGTESIMMACKA--------------YRDYAREEKGISLPEIVLPTTAHPAFDKAANY 244
T+G TE++ A A Y YA PA + A
Sbjct: 97 TAGATEALFAAILALVRPGDEVIVFDPSYDSYA------------------PAIELA--- 135
Query: 245 FGMKVKHIRLTS-SYTVDLAALQSAITGNTVMLVGSMPNFPYGTM---DDIGAIAKL 297
G + + L + VD +AI+ T +++ + P+ P GT+ D+ A+ +L
Sbjct: 136 -GGRAVRVALQPPDFRVDWQRFAAAISPRTRLIILNTPHNPSGTVWSAADMRALWQL 191
>gnl|CDD|185613 PTZ00433, PTZ00433, tyrosine aminotransferase; Provisional.
Length = 412
Score = 33.6 bits (77), Expect = 0.18
Identities = 37/170 (21%), Positives = 67/170 (39%), Gaps = 28/170 (16%)
Query: 198 MTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYFG--MKVKHIRLT 255
+ SG + +I+MA A D I++P P ++ +G M+ + R
Sbjct: 109 LCSGVSHAILMALTALCDEG--------DNILVPAPGFPHYETVCKAYGIEMRFYNCRPE 160
Query: 256 SSYTVDLAALQSAITGNTVMLVGSMPNFPYG---TMDDIGAIAKLGEKYGIPVHVDCCLG 312
+ DL ++ + T L+ + P+ P G + + I +L E+ +P+ D
Sbjct: 161 KDWEADLDEIRRLVDDRTKALIMTNPSNPCGSNFSRKHVEDIIRLCEELRLPLISDEIYA 220
Query: 313 GFL---APFMSAAGY--PLPPF-------DFSLPGVT---SISVDTHKYG 347
G + A F S A + +P + +PG + VD H G
Sbjct: 221 GMVFNGATFTSVADFDTTVPRVILGGTAKNLVVPGWRLGWLLLVDPHGNG 270
>gnl|CDD|236248 PRK08361, PRK08361, aspartate aminotransferase; Provisional.
Length = 391
Score = 33.7 bits (77), Expect = 0.19
Identities = 32/108 (29%), Positives = 47/108 (43%), Gaps = 7/108 (6%)
Query: 227 EIVLPTTAHPAFDKAANYFGMKVKHI--RLTSSYTVDLAALQSAITGNTVMLVGSMPNFP 284
E+++P A + + A K I R + + D L IT T M+V + PN P
Sbjct: 119 EVIIPDPAFVCYVEDAKIAEAKPIRIPLREENEFQPDPDELLELITKRTRMIVINYPNNP 178
Query: 285 YG-TMDD--IGAIAKLGEKYGIPVHVDCCLGGFLAPFMSAAGYPLPPF 329
G T+D AIA + E Y I + D FL + A YP+ +
Sbjct: 179 TGATLDKEVAKAIADIAEDYNIYILSDEPYEHFL--YEGAKHYPMIKY 224
>gnl|CDD|215460 PLN02855, PLN02855, Bifunctional selenocysteine lyase/cysteine
desulfurase.
Length = 424
Score = 33.6 bits (77), Expect = 0.20
Identities = 18/88 (20%), Positives = 35/88 (39%), Gaps = 4/88 (4%)
Query: 227 EIVLPTTAHPA----FDKAANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPN 282
E++L H + + A G +K + LT +D+ L+ ++ T ++ +
Sbjct: 124 EVILSVAEHHSNIVPWQLVAQKTGAVLKFVGLTPDEVLDVEQLKELLSEKTKLVATHHVS 183
Query: 283 FPYGTMDDIGAIAKLGEKYGIPVHVDCC 310
G++ + I G V VD C
Sbjct: 184 NVLGSILPVEDIVHWAHAVGAKVLVDAC 211
>gnl|CDD|216419 pfam01297, SBP_bac_9, Periplasmic solute binding protein family.
This family includes periplasmic solute binding proteins
such as TroA that interacts with an ATP-binding cassette
transport system in Treponema pallidum.
Length = 263
Score = 33.1 bits (76), Expect = 0.23
Identities = 20/79 (25%), Positives = 31/79 (39%), Gaps = 10/79 (12%)
Query: 233 TAHPAFDKAANYFGMKVKHIRLTSSYT----VDLAALQSAITGNTVMLVGSMPNFPYGTM 288
T H AF A +G++ I S + DLA L I + V ++ P F
Sbjct: 163 TFHDAFGYFAKAYGLEQIGILGVSPGSEPSPADLAELIKLIKEHNVKVIFVEPQFSPKVA 222
Query: 289 DDIGAIAKLGEKYGIPVHV 307
+ L ++ G+ V V
Sbjct: 223 E------TLAKETGVKVVV 235
>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 = 33.1 bits (76), Expect = 0.24
Identities = 33/115 (28%), Positives = 48/115 (41%), Gaps = 19/115 (16%)
Query: 287 TMDDIGAIAKLGEKYGIPVHVDCCLGGFLAPFMSAAGYPLPPFDFSLP-GVTSISVDTHK 345
+D++ AI+ L ++ G+P+H+D G LA +A G L + GV S+S K
Sbjct: 144 PLDELKAISALAKENGLPLHLD---GARLANAAAALGVAL----KTYKSGVDSVSFCLSK 196
Query: 346 YGFTPKGSSVVLYRDLKYKHCQYFVTSDWPGGNYGSPSVSGSRSGGIIATCWAAM 400
G P G+ VV RD + GG G R G +A A
Sbjct: 197 GGGAPVGAVVVGNRDFI-ARARRRRKQ--AGG--------GMRQSGFLAAAGLAA 240
>gnl|CDD|236095 PRK07777, PRK07777, aminotransferase; Validated.
Length = 387
Score = 33.1 bits (76), Expect = 0.25
Identities = 16/44 (36%), Positives = 28/44 (63%), Gaps = 3/44 (6%)
Query: 257 SYTVDLAALQSAITGNTVMLVGSMPNFPYGTM---DDIGAIAKL 297
+ +DL AL++A+T T L+ + P+ P GT+ ++ AIA+L
Sbjct: 144 GFALDLDALRAAVTPRTRALIVNSPHNPTGTVLTAAELAAIAEL 187
>gnl|CDD|183263 PRK11658, PRK11658, UDP-4-amino-4-deoxy-L-arabinose--oxoglutarate
aminotransferase; Provisional.
Length = 379
Score = 33.1 bits (76), Expect = 0.30
Identities = 18/46 (39%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 260 VDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPV 305
V A+++AIT T ++ P G D+ AI +GE+YGIPV
Sbjct: 109 VTPEAIEAAITPRTKAII---PVHYAGAPADLDAIRAIGERYGIPV 151
>gnl|CDD|204414 pfam10211, Ax_dynein_light, Axonemal dynein light chain. Axonemal
dynein light chain proteins play a dynamic role in
flagellar and cilia motility. Eukaryotic cilia and
flagella are complex organelles consisting of a core
structure, the axoneme, which is composed of nine
microtubule doublets forming a cylinder that surrounds a
pair of central singlet microtubules. This
ultra-structural arrangement seems to be one of the most
stable micro-tubular assemblies known and is responsible
for the flagellar and ciliary movement of a large number
of organisms ranging from protozoan to mammals. This
light chain interacts directly with the N-terminal half
of the heavy chains.
Length = 189
Score = 32.2 bits (74), Expect = 0.31
Identities = 19/49 (38%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 61 LKKRVFKLARKIPAVRKKLEEETGKVAKLFQDDI---KQNNAGLEYFLE 106
L+KRV +L K+ A+ K+ EEE K D+I K+ N L+ LE
Sbjct: 139 LEKRVAELEAKLEAIEKREEEERQIEEKRHADEIAFLKKQNQQLKSQLE 187
>gnl|CDD|224028 COG1103, COG1103, Archaea-specific pyridoxal phosphate-dependent
enzymes [General function prediction only].
Length = 382
Score = 32.4 bits (74), Expect = 0.40
Identities = 30/142 (21%), Positives = 53/142 (37%), Gaps = 29/142 (20%)
Query: 178 AEVIKM-CARMFNGGPETCGCMTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHP 236
AE + M R+ G E ++M A D+ +V+ + AH
Sbjct: 71 AEFLGMDEVRVTAGARE--------AKFAVMHALCKEGDW-----------VVVDSLAHY 111
Query: 237 AFDKAANYFGMKVKHIRLTS--SYTVDLAALQSAI------TGNTVML-VGSMPNFPYGT 287
AA G+ V + T Y + I G+ L + + + YG
Sbjct: 112 TTYVAAERAGLNVAEVPNTGYPEYKITPEGYAEVIEEVKDEGGDPPALALLTHVDGEYGN 171
Query: 288 MDDIGAIAKLGEKYGIPVHVDC 309
+ D +AK+ +YG+P+ ++C
Sbjct: 172 LADAKKVAKICREYGVPLLLNC 193
>gnl|CDD|179559 PRK03321, PRK03321, putative aminotransferase; Provisional.
Length = 352
Score = 32.2 bits (74), Expect = 0.45
Identities = 22/74 (29%), Positives = 36/74 (48%), Gaps = 5/74 (6%)
Query: 234 AHPAFDKAANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGA 293
A+P + A ++V LT +T DL A+ +AIT T ++ PN P GT+
Sbjct: 110 AYPILVQVAGATPVQVP---LTPDHTHDLDAMAAAITDRTRLIFVCNPNNPTGTVVTPAE 166
Query: 294 IAKLGEKYGIPVHV 307
+A+ + +P V
Sbjct: 167 LARFLDA--VPADV 178
>gnl|CDD|236469 PRK09331, PRK09331, Sep-tRNA:Cys-tRNA synthetase; Provisional.
Length = 387
Score = 32.2 bits (74), Expect = 0.46
Identities = 23/91 (25%), Positives = 38/91 (41%), Gaps = 9/91 (9%)
Query: 228 IVLPTTAHPAFDKAANYFGMKVKHIRLT--SSYTVDLAALQSAI------TG-NTVMLVG 278
+VL AH AA G+ V+ + T Y + A I TG + +
Sbjct: 105 VVLDGLAHYTSYVAAERAGLNVREVPKTGYPEYKITPEAYAEKIEEVKEETGKPPALALL 164
Query: 279 SMPNFPYGTMDDIGAIAKLGEKYGIPVHVDC 309
+ + YG + D +AK+ +YGIP ++
Sbjct: 165 THVDGNYGNLADAKKVAKVAHEYGIPFLLNG 195
>gnl|CDD|163313 TIGR03537, DapC, succinyldiaminopimelate transaminase. The four
sequences which make up the seed for this model are not
closely related, although they are all members of the
pfam00155 family of aminotransferases and are more
closely related to each other than to anything else.
Additionally, all of them are found in the vicinity of
genes involved in the biosynthesis of lysine via the
diaminopimelate pathway (GenProp0125), although this
amount to a separation of 12 genes in the case of
Sulfurihydrogenibium azorense Az-Fu1. None of these
genomes contain another strong candidate for this role
in the pathway. Note: the detailed information included
in the EC:2.6.1.17 record includes the assertions that
the enzyme uses the pyridoxal pyrophosphate cofactor,
which is consistent with the pfam00155 family, and the
assertion that the amino group donor is L-glutamate,
which is undetermined for the sequences in this clade.
Length = 350
Score = 32.2 bits (73), Expect = 0.52
Identities = 21/127 (16%), Positives = 54/127 (42%), Gaps = 16/127 (12%)
Query: 192 PETCGCMTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYFGMKVKH 251
P+ ++G E+I + D + + + + T +P +++ A + G +
Sbjct: 59 PDAQVLPSAGSKEAIFHFPLVFIDPEEDRRRV-----IFGTPGYPVYERGALFAGGEPTA 113
Query: 252 IRLTSS--YTVDLAALQSAITGNTVMLVGSMPNFPYGT------MDDIGAIAKLGEKYGI 303
++L + + L ++ +I T ++ + P+ P G + + A+ + ++GI
Sbjct: 114 VKLKKEDGFLLRLEKVEKSILEETKIVWINYPHNPTGATAPRSYLKETIAMCR---EHGI 170
Query: 304 PVHVDCC 310
+ D C
Sbjct: 171 ILCSDEC 177
>gnl|CDD|180392 PRK06084, PRK06084, O-acetylhomoserine
aminocarboxypropyltransferase; Validated.
Length = 425
Score = 32.2 bits (73), Expect = 0.56
Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 261 DLAALQSAITGNT-VMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVD 308
D+AAL++ I T + S+ N P G + DI A+A ++G+P+ VD
Sbjct: 132 DIAALEALIDERTKAVFCESIGN-PAGNIIDIQALADAAHRHGVPLIVD 179
>gnl|CDD|179869 PRK04635, PRK04635, histidinol-phosphate aminotransferase;
Provisional.
Length = 354
Score = 31.9 bits (73), Expect = 0.56
Identities = 17/56 (30%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 242 ANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKL 297
A F + VK + LT+ Y + L + + G ++ + + PN P GT+ D I +L
Sbjct: 119 AETFNVGVKALPLTADYQLPLDYI-EQLDGAKLVFICN-PNNPTGTVIDRADIEQL 172
>gnl|CDD|181076 PRK07671, PRK07671, cystathionine beta-lyase; Provisional.
Length = 377
Score = 32.0 bits (73), Expect = 0.61
Identities = 20/69 (28%), Positives = 30/69 (43%), Gaps = 5/69 (7%)
Query: 240 KAANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGE 299
K N FG I T T +L ++ AI NT + P P + DI I+ + +
Sbjct: 107 KVLNRFG-----IEHTFVDTSNLEEVEEAIRPNTKAIYVETPTNPLLKITDIKKISTIAK 161
Query: 300 KYGIPVHVD 308
+ G+ VD
Sbjct: 162 EKGLLTIVD 170
>gnl|CDD|223935 COG1003, GcvP, Glycine cleavage system protein P
(pyridoxal-binding), C-terminal domain [Amino acid
transport and metabolism].
Length = 496
Score = 31.9 bits (73), Expect = 0.73
Identities = 30/107 (28%), Positives = 49/107 (45%), Gaps = 13/107 (12%)
Query: 207 MMACKAYRDYAREEKGISLPEIVL-PTTAH---PAFDKAANYFGMKVKHIRLTSSYTVDL 262
++A +AY E +G I L P +AH PA +A G KV ++ + VDL
Sbjct: 142 LLAIRAYH----ESRGEGHRNICLIPDSAHGTNPA---SAAMAGFKVVVVKCDENGNVDL 194
Query: 263 AALQSAITGNTVMLVGSMPNFPYGTM-DDIGAIAKLGEKYGIPVHVD 308
L++ N L+ + P+ G +DI I ++ + G V+ D
Sbjct: 195 DDLRAKAEDNLAALMITNPS-TLGVFEEDIREICEIVHEAGGQVYYD 240
>gnl|CDD|130393 TIGR01326, OAH_OAS_sulfhy, OAH/OAS sulfhydrylase. This model
describes a distinct clade of the Cys/Met metabolism
pyridoxal phosphate-dependent enzyme superfamily.
Members include examples of OAH/OAS sulfhydrylase, an
enzyme with activity both as O-acetylhomoserine (OAH)
sulfhydrylase (EC 2.5.1.49) and O-acetylserine (OAS)
sulphydrylase (EC 2.5.1.47). An alternate name for OAH
sulfhydrylase is homocysteine synthase. This model is
designated subfamily because it may or may not have both
activities [Amino acid biosynthesis, Aspartate family,
Amino acid biosynthesis, Serine family].
Length = 418
Score = 31.6 bits (72), Expect = 0.74
Identities = 19/71 (26%), Positives = 27/71 (38%), Gaps = 9/71 (12%)
Query: 261 DLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCCLGGFLAPFMS 320
D + AI NT + P + DI AIA++ +G+P+ VD
Sbjct: 131 DPEEFEKAIDENTKAVFAETIGNPAINVPDIEAIAEVAHAHGVPLIVDNTF--------- 181
Query: 321 AAGYPLPPFDF 331
A Y P D
Sbjct: 182 ATPYLCRPIDH 192
>gnl|CDD|216367 pfam01212, Beta_elim_lyase, Beta-eliminating lyase.
Length = 288
Score = 31.4 bits (72), Expect = 0.85
Identities = 13/61 (21%), Positives = 26/61 (42%), Gaps = 11/61 (18%)
Query: 259 TVDLAALQSAITGNTVMLVGSMP--------NFPYGT---MDDIGAIAKLGEKYGIPVHV 307
+DL L++AI + N G ++++ I + ++GIP+H+
Sbjct: 108 KLDLEDLEAAIRPVGDIHFPPTGLISLENTHNSAGGQVVSLEELREIRAIAREHGIPLHL 167
Query: 308 D 308
D
Sbjct: 168 D 168
>gnl|CDD|148445 pfam06838, Alum_res, Aluminium resistance protein. This family
represents the aluminium resistance protein, which
confers resistance to aluminium in bacteria. Structural
characterisation has shown proteins in this family bind
a pyridoxal-5'-phosphate cofactor, and that they belongs
to the PLP dependent aminotransferase superfamily.
Crystal packing analysis suggests that in solution, a
tetramer may be the stable oligomeric form. This is in
contrast to most other aminotransferases which form
dimers (information from TOPSAN).
Length = 405
Score = 31.5 bits (72), Expect = 0.90
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 12/79 (15%)
Query: 245 FGMKVKHIRLTSSYTVDLAALQSAITGNTVMLV-------GSMPNFPYGTMDDIGAIAKL 297
FG+ + + L + VD A+++AIT NT ++ P+ T+ +I + K
Sbjct: 128 FGIGYREVPLLENGKVDWQAVKTAITPNTKLIGIQRSKGYAWRPSL---TIAEIKEMIKF 184
Query: 298 --GEKYGIPVHVDCCLGGF 314
+ V VD C G F
Sbjct: 185 VKEINPNVIVFVDNCYGEF 203
>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 = 31.1 bits (71), Expect = 1.1
Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 7/65 (10%)
Query: 281 PNFPYGTMDDIGAIAKLGEKYGIPVHVDCCLGGFLAPFMSAAGYPLPPFDFSLPGVTSIS 340
P + YG ++ I + G+PV VD G F +P+ P ++ G +
Sbjct: 163 PTY-YGICYNLRKIVEEAHHRGLPVLVDEAHGAH-FRF-----HPILPSSAAMAGADIVV 215
Query: 341 VDTHK 345
THK
Sbjct: 216 QSTHK 220
>gnl|CDD|236105 PRK07812, PRK07812, O-acetylhomoserine
aminocarboxypropyltransferase; Validated.
Length = 436
Score = 30.9 bits (70), Expect = 1.5
Identities = 14/48 (29%), Positives = 25/48 (52%)
Query: 261 DLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVD 308
DL A ++A+ NT + P + DI +A++ + G+P+ VD
Sbjct: 144 DLDAWRAAVRPNTKAFFAETISNPQIDVLDIPGVAEVAHEAGVPLIVD 191
>gnl|CDD|235064 PRK02731, PRK02731, histidinol-phosphate aminotransferase;
Validated.
Length = 367
Score = 30.5 bits (70), Expect = 1.6
Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 258 YTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHV 307
Y DL A+ +A+T T ++ + PN P GT + + G+P V
Sbjct: 140 YGHDLDAMLAAVTPRTRLVFIANPNNPTGTYLPAEEVERFLA--GVPPDV 187
>gnl|CDD|235989 PRK07324, PRK07324, transaminase; Validated.
Length = 373
Score = 30.7 bits (70), Expect = 1.8
Identities = 13/60 (21%), Positives = 27/60 (45%), Gaps = 8/60 (13%)
Query: 245 FGMKVK--HIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGT------MDDIGAIAK 296
G +V ++ + + DL L+ + NT ++ + N P G +++I IA+
Sbjct: 124 LGAEVDYWQLKEENGWLPDLDELRRLVRPNTKLICINNANNPTGALMDRAYLEEIVEIAR 183
>gnl|CDD|223157 COG0079, HisC, Histidinol-phosphate/aromatic aminotransferase and
cobyric acid decarboxylase [Amino acid transport and
metabolism].
Length = 356
Score = 30.4 bits (69), Expect = 1.9
Identities = 26/114 (22%), Positives = 48/114 (42%), Gaps = 11/114 (9%)
Query: 197 CMTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYFGMKVKHIRLTS 256
+ +G E I + +A+ + +++P ++ AA G +V + L
Sbjct: 79 LVGNGSDELIELLVRAFVEPGDT--------VLIPEPTFSMYEIAAQLAGAEVVKVPLKE 130
Query: 257 SYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGE--KYGIPVHVD 308
+ +DL A+ +AI T ++ PN P GT+ + L E G V +D
Sbjct: 131 -FRLDLDAILAAIRDKTKLVFLCNPNNPTGTLLPREELRALLEALPEGGLVVID 183
>gnl|CDD|223699 COG0626, MetC, Cystathionine beta-lyases/cystathionine
gamma-synthases [Amino acid transport and metabolism].
Length = 396
Score = 30.2 bits (69), Expect = 1.9
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 259 TVDLAALQSAITGNT-VMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVD 308
D A + NT ++ + + N P + DI AIA+L + YG V VD
Sbjct: 136 GDDEALEAAIKEPNTKLVFLETPSN-PLLEVPDIPAIARLAKAYGALVVVD 185
>gnl|CDD|181651 PRK09105, PRK09105, putative aminotransferase; Provisional.
Length = 370
Score = 30.4 bits (69), Expect = 2.2
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 7/65 (10%)
Query: 233 TAHPAFD---KAANYFGMKVKHIRLTSSYTVDLAALQSAITGNTVMLVGSMPNFPYGT-- 287
TA P ++ +AA+ G V + L + D+ A+ +A N ++ PN P GT
Sbjct: 124 TADPTYEAGWRAADAQGAPVAKVPLRADGAHDVKAMLAA-DPNAGLIYICNPNNPTGTVT 182
Query: 288 -MDDI 291
DI
Sbjct: 183 PRADI 187
>gnl|CDD|236159 PRK08134, PRK08134, O-acetylhomoserine
aminocarboxypropyltransferase; Validated.
Length = 433
Score = 30.1 bits (68), Expect = 2.2
Identities = 15/48 (31%), Positives = 25/48 (52%)
Query: 261 DLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVD 308
D+ ++AI NT +L G P + DI +A + + G+P+ VD
Sbjct: 138 DIDGWRAAIRPNTRLLFGETLGNPGLEVLDIPTVAAIAHEAGVPLLVD 185
>gnl|CDD|235292 PRK04366, PRK04366, glycine dehydrogenase subunit 2; Validated.
Length = 481
Score = 30.1 bits (69), Expect = 2.2
Identities = 30/101 (29%), Positives = 51/101 (50%), Gaps = 22/101 (21%)
Query: 206 IMMACKAYRDYAREEKGISLPEIVLPTTAH---PAFDKAANYFGMKVKHIRLTSSYTVDL 262
++M +AY + AR + + E+++P +AH PA A + KV I VDL
Sbjct: 146 LLMI-RAYHE-ARGDTKRT--EVIVPDSAHGTNPASAAMAGF---KVVEIPSNEDGLVDL 198
Query: 263 AALQSAITGNT--VMLVGSMPNFPYGTM----DDIGAIAKL 297
AL++A+ +T +ML + PN T+ +I IA++
Sbjct: 199 EALKAAVGEDTAALML--TNPN----TLGLFERNILEIAEI 233
>gnl|CDD|220721 pfam10373, EST1_DNA_bind, Est1 DNA/RNA binding domain. Est1 is a
protein which recruits or activates telomerase at the
site of polymerisation. This is the DNA/RNA binding
domain of EST1.
Length = 276
Score = 30.0 bits (68), Expect = 2.4
Identities = 17/64 (26%), Positives = 28/64 (43%), Gaps = 3/64 (4%)
Query: 28 IVAMTTASVLTTVYVY-ESLFSRDPFDT--DSLTGKLKKRVFKLARKIPAVRKKLEEETG 84
++A+ + L VY Y SL R+PF T ++L +K F + K +EE+
Sbjct: 24 VIALYVGNHLDAVYYYLRSLAVRNPFPTAKNNLELLFEKIKFLADLVSQELLNKGKEESK 83
Query: 85 KVAK 88
Sbjct: 84 SDLL 87
>gnl|CDD|168979 PRK07504, PRK07504, O-succinylhomoserine sulfhydrylase; Reviewed.
Length = 398
Score = 30.1 bits (68), Expect = 2.4
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 4/50 (8%)
Query: 261 DLAALQSAITGNTVMLVGSMPNFPYGTMD--DIGAIAKLGEKYGIPVHVD 308
DL + A+ NT + P P T++ DI A+AK+ + G + VD
Sbjct: 139 DLDNWEKAVRPNTKVFFLESPTNP--TLEVIDIAAVAKIANQAGAKLVVD 186
>gnl|CDD|99741 cd00617, Tnase_like, Tryptophanase family (Tnase). This family
belongs to pyridoxal phosphate (PLP)-dependent aspartate
aminotransferase superfamily (fold I). The major groups
in this CD correspond to tryptophanase (Tnase) and
tyrosine phenol-lyase (TPL). Tnase and TPL are active as
tetramers and catalyze beta-elimination reactions. Tnase
catalyzes degradation of L-tryptophan to yield indole,
pyruvate and ammonia and TPL catalyzes degradation of
L-tyrosine to yield phenol, pyruvate and ammonia.
Length = 431
Score = 30.0 bits (68), Expect = 2.8
Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 7/50 (14%)
Query: 261 DLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCC 310
++ + IT NT G P +M ++ + +L KYGIPV +D
Sbjct: 152 NIPYIVLTITNNTA---GGQPV----SMANLREVRELAHKYGIPVVLDAA 194
>gnl|CDD|235630 PRK05865, PRK05865, hypothetical protein; Provisional.
Length = 854
Score = 30.0 bits (67), Expect = 2.8
Identities = 27/168 (16%), Positives = 48/168 (28%), Gaps = 44/168 (26%)
Query: 178 AEVIKMCARMFNGGPETCGCMTSGGTESI---MMACKAYRDYAREEKGISLPEIVLPTTA 234
A+V+ CA + + GT ++ M R IV ++
Sbjct: 62 ADVVAHCAWVRGRNDH----INIDGTANVLKAMAETGTGR-------------IVFTSSG 104
Query: 235 HPAFDKAANYFGMKVKHIRLTS---SYTVDLAALQSAITGNTVMLVGSMPNFPYGTMDDI 291
H +V+ + V A + N V + ++P P G D +
Sbjct: 105 HQP----------RVEQMLADCGLEWVAVRCALIFGRNVDNWVQRLFALPVLPAGYADRV 154
Query: 292 GAIAKLGEKYGIPVHVDCCLGGFLAPFMSAAGYPLPPFDFSLPGVTSI 339
+ VH D L + P + + PG +
Sbjct: 155 VQV----------VHSDDAQ-RLLVRALLDTVIDSGPVNLAAPGELTF 191
>gnl|CDD|233664 TIGR01976, am_tr_V_VC1184, cysteine desulfurase family protein,
VC1184 subfamily. This model describes a subfamily of
probable pyridoxal phosphate-dependent enzymes in the
aminotransferase class V family (pfam00266). The most
closely related characterized proteins are active as
cysteine desulfurases, selenocysteine lyases, or both;
some are involved in FeS cofactor biosynthesis and are
designated NifS. An active site Cys residue present in
those sequences, in motifs resembling GHHC or GSAC, is
not found in this family. The function of members of
this family is unknown, but seems unlike to be as an
aminotransferase [Unknown function, Enzymes of unknown
specificity].
Length = 397
Score = 29.7 bits (67), Expect = 2.8
Identities = 22/88 (25%), Positives = 41/88 (46%), Gaps = 5/88 (5%)
Query: 227 EIVLPTTAHPA----FDKAANYFGMKVKHIRL-TSSYTVDLAALQSAITGNTVMLVGSMP 281
E+++ H A + +AA G KVK R+ ++ + L S ++ T ++ +
Sbjct: 106 EVIVTRLDHEANISPWLQAAERAGAKVKWARVDEATGELHPDDLASLLSPRTRLVAVTAA 165
Query: 282 NFPYGTMDDIGAIAKLGEKYGIPVHVDC 309
+ G++ D+ AI +L G V VD
Sbjct: 166 SNTLGSIVDLAAITELVHAAGALVVVDA 193
>gnl|CDD|180443 PRK06176, PRK06176, cystathionine gamma-synthase/cystathionine
beta-lyase; Validated.
Length = 380
Score = 29.9 bits (67), Expect = 2.9
Identities = 16/56 (28%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 257 SYTV----DLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVD 308
S T+ DL+ ++ AI NT L P+ P + D+ A + + +G+ VD
Sbjct: 115 SCTIIDTSDLSQIKKAIKPNTKALYLETPSNPLLKITDLAQCASVAKDHGLLTIVD 170
>gnl|CDD|183710 PRK12737, gatY, tagatose-bisphosphate aldolase; Reviewed.
Length = 284
Score = 29.7 bits (67), Expect = 2.9
Identities = 19/49 (38%), Positives = 25/49 (51%), Gaps = 8/49 (16%)
Query: 263 AALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAK-LGEKYGIPV--HVD 308
A L+S V+L G+ F Y D I AIA+ KY IP+ H+D
Sbjct: 39 AELRSP-----VILAGTPGTFSYAGTDYIVAIAEVAARKYNIPLALHLD 82
>gnl|CDD|213963 TIGR04350, C_S_lyase_PatB, putative C-S lyase. Members of this
subfamily are probable C-S lyases from a family of
pyridoxal phosphate-dependent enzymes that tend to be
(mis)annotated as probable aminotransferases. One member
is PatB of Bacillus subtilis, a proven C-S-lyase.
Another is the virulence factor cystalysin from
Treponema denticola, whose hemolysin activity may stem
from H2S production. Members of the seed alignment occur
next to examples of the enzyme 5-histidylcysteine
sulfoxide synthase, from ovothiol A biosynthesis, and
would be expected to perform a C-S cleavage of
5-histidylcysteine sulfoxide to leave
1-methyl-4-mercaptohistidine (ovothiol A).
Length = 384
Score = 29.6 bits (67), Expect = 3.0
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 3/55 (5%)
Query: 257 SYTVDLAALQSAITGNTVMLVGSMPNFPYG---TMDDIGAIAKLGEKYGIPVHVD 308
Y DL L+ AIT +L+ P+ P G T +++ +A+L ++ + V D
Sbjct: 142 RYRFDLEDLEDAITEKARLLLLCSPHNPVGRVWTREELTRLAELCLRHNVVVVSD 196
>gnl|CDD|237960 PRK15407, PRK15407, lipopolysaccharide biosynthesis protein RfbH;
Provisional.
Length = 438
Score = 29.9 bits (68), Expect = 3.0
Identities = 13/55 (23%), Positives = 30/55 (54%), Gaps = 7/55 (12%)
Query: 258 YTVDLAALQSAITGNT--VMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCC 310
Y +D + L++A++ T +M+ ++ N P+ D+ A+ +K+ + + D C
Sbjct: 145 YNIDASLLEAAVSPKTKAIMIAHTLGN-PF----DLAAVKAFCDKHNLWLIEDNC 194
>gnl|CDD|215089 PLN00175, PLN00175, aminotransferase family protein; Provisional.
Length = 413
Score = 29.4 bits (66), Expect = 3.5
Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 13/100 (13%)
Query: 192 PETCGCMTSGGTESIMMACKAYRDYAREEKGISLP--EIVLPTTAHPAFDKAANYFGMKV 249
PE +TSG TE+I A G+ P E++L + +++ + G K+
Sbjct: 114 PEKEVTVTSGCTEAI----------AATILGLINPGDEVILFAPFYDSYEATLSMAGAKI 163
Query: 250 KHIRLTS-SYTVDLAALQSAITGNTVMLVGSMPNFPYGTM 288
K + L + V L++A T T ++ + P+ P G M
Sbjct: 164 KTVTLRPPDFAVPEDELKAAFTSKTRAILINTPHNPTGKM 203
>gnl|CDD|233959 TIGR02639, ClpA, ATP-dependent Clp protease ATP-binding subunit
clpA. [Protein fate, Degradation of proteins, peptides,
and glycopeptides].
Length = 730
Score = 29.6 bits (67), Expect = 3.9
Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 12/86 (13%)
Query: 38 TTVYVYESLFSRDPFDTDSLTGKLKKRVFKLA-RKIPAVRKKLEEETGKVAKLFQDDIKQ 96
+ V E +P T + +RV + A + + KK + + LF ++
Sbjct: 63 ENLPVIEEEIDEEPEQTVGV-----QRVIQRALLHVKSAGKKEIDIGDLLVALFDEE--D 115
Query: 97 NNAGLEYFLELPSQGRNRLEILELVS 122
++A YFL+ SQG RL+IL +S
Sbjct: 116 SHAS--YFLK--SQGITRLDILNYIS 137
>gnl|CDD|168128 PRK05613, PRK05613, O-acetylhomoserine
aminocarboxypropyltransferase; Validated.
Length = 437
Score = 29.5 bits (66), Expect = 4.0
Identities = 14/48 (29%), Positives = 24/48 (50%)
Query: 261 DLAALQSAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVD 308
D + Q+A+ NT G P + DI A+A++ + +P+ VD
Sbjct: 144 DPESWQAAVQPNTKAFFGETFANPQADVLDIPAVAEVAHRNQVPLIVD 191
>gnl|CDD|218620 pfam05511, ATP-synt_F6, Mitochondrial ATP synthase coupling
factor 6. Coupling factor 6 (F6) is a component of
mitochondrial ATP synthase which is required for the
interactions of the catalytic and proton-translocating
segments.
Length = 99
Score = 27.8 bits (62), Expect = 4.2
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 60 KLKKRVFKLARKIPAVRKKLEEETGKVAKLFQ 91
K K KL P K+L+EE K+AK +
Sbjct: 51 KSKSSGGKLVDAGPEYEKELKEELEKLAKQYG 82
>gnl|CDD|227325 COG4992, ArgD, Ornithine/acetylornithine aminotransferase [Amino
acid transport and metabolism].
Length = 404
Score = 29.4 bits (67), Expect = 4.2
Identities = 19/94 (20%), Positives = 34/94 (36%), Gaps = 23/94 (24%)
Query: 198 MTSGGTESIMMACKAYRDYAREEKGISLPEIVLPTTAHPAF-------------DKAANY 244
+ G E+ A K R Y + + +I+ +F K
Sbjct: 105 FCNSGAEANEAALKLARKYTGDPEK---SKII---AFENSFHGRTLGALSATGQPKYRKG 158
Query: 245 FGMKVKHIRLTSSYTVDLAALQSAITGNT--VML 276
FG + R + D+ AL++AI +T V++
Sbjct: 159 FGPLLPGFR-HVPFN-DIEALEAAIDEDTAAVIV 190
>gnl|CDD|234374 TIGR03858, LLM_2I7G, probable oxidoreductase, LLM family. This
model describes a highly conserved, somewhat broadly
distributed family withing the luciferase-like
monooxygenase (LLM) superfamily. Most members are from
species incapable of synthesizing coenzyme F420, bound
by some members of the LLM superfamily. Members,
therefore, are more likely to use FMN as a cofactor.
Length = 337
Score = 29.1 bits (66), Expect = 4.5
Identities = 15/43 (34%), Positives = 20/43 (46%), Gaps = 12/43 (27%)
Query: 218 REEKGISLPEIVLPTTAHPAFDKAANYFGMKVKHIRLTSSYTV 260
R + +S PE+VL A + K IRLTS+ TV
Sbjct: 50 RPDYAVSAPEVVLAAAA------------ARTKRIRLTSAVTV 80
>gnl|CDD|238622 cd01297, D-aminoacylase, D-aminoacylases (N-acyl-D-Amino acid
amidohydrolases) catalyze the hydrolysis of
N-acyl-D-amino acids to produce the corresponding
D-amino acids, which are used as intermediates in the
synthesis of pesticides, bioactive peptides, and
antibiotics.
Length = 415
Score = 29.2 bits (66), Expect = 5.1
Identities = 28/128 (21%), Positives = 43/128 (33%), Gaps = 16/128 (12%)
Query: 116 EILELVSNYLARGHYDWKHGRVSGAVYYYQQDLVDLLTEVFGLTSYTNPLHPDIFPGVCK 175
E+L L H + +GA + + LL + + + D++P
Sbjct: 232 ELLRLGR--ETGRPVHISHLKSAGAPNW--GKIDRLLALIEAARAEGLQVTADVYPYGAG 287
Query: 176 MEAEVIKMCARMFNGGPETCGCMTSGGTESI----MMACKAY--RDYAREEKGISLPEIV 229
E +V ++ A P G + GG Y RE K +SL E V
Sbjct: 288 SEDDVRRIMAH-----PVVMGG-SDGGALGKPHPRSYGDFTRVLGHYVRERKLLSLEEAV 341
Query: 230 LPTTAHPA 237
T PA
Sbjct: 342 RKMTGLPA 349
>gnl|CDD|188996 cd06457, M3A_MIP, Peptidase M3 mitochondrial intermediate peptidase
(MIP). Peptidase M3 mitochondrial intermediate
peptidase (MIP; EC 3.4.24.59) belongs to the widespread
subfamily M3A, that show similarity to the Thimet
oligopeptidase (TOP). It is one of three peptidases
responsible for the proteolytic processing of both,
nuclear and mitochondrial encoded precursor polypeptides
targeted to the various subcompartments of the
mitochondria. It cleaves intermediate-size proteins
initially processed by mitochondrial processing
peptidase (MPP) to yield a processing intermediate with
a typical N-terminal octapeptide that is sequentially
cleaved by MIP to mature-size protein. MIP cleaves
precursor proteins of respiratory components, including
subunits of the electron transport chain and
tri-carboxylic acid cycle enzymes, and components of the
mitochondrial genetic machinery, including ribosomal
proteins, translation factors, and proteins required for
mitochondrial DNA metabolism. It has been suggested that
the human MIP (HMIP polypeptide; gene symbol MIPEP) may
be one of the loci predicted to influence the clinical
manifestations of Friedreich's ataxia (FRDA), an
autosomal recessive neurodegenerative disease caused by
lack of human frataxin. These proteins are enriched in
cysteine residues, two of which are highly conserved,
suggesting their importance to stability as well as in
formation of metal binding sites, thus playing a role in
MIP activity.
Length = 606
Score = 29.1 bits (66), Expect = 5.3
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 11/68 (16%)
Query: 67 KLARKIPAVRKKLEEETGKVAKLFQDDIKQNNAGLEYFLELPSQGRNRL-----EILELV 121
K A + V L EE +VAKL D ++ +G + LP + R R EIL+L
Sbjct: 102 KSALEDKEVVASLSEEERRVAKLLLFDFEK--SG----IHLPPEKRERFVELSSEILQLG 155
Query: 122 SNYLARGH 129
+L
Sbjct: 156 REFLNNAE 163
>gnl|CDD|237386 PRK13429, PRK13429, F0F1 ATP synthase subunit delta; Provisional.
Length = 181
Score = 28.2 bits (64), Expect = 5.9
Identities = 17/75 (22%), Positives = 27/75 (36%), Gaps = 21/75 (28%)
Query: 204 ESIMMA-CKAYRDYAREEKGISLPEIVLPTTAHPAFDKAANYFGMKVKHIRLTSSYTVDL 262
I+ Y + A E+KGI + T+A P + + + IR
Sbjct: 88 LGILPEIAARYLELADEQKGIVRATV---TSAVPLSEA-------QQEAIR--------- 128
Query: 263 AALQSAITGNTVMLV 277
L+ +TG V L
Sbjct: 129 QKLEK-MTGKKVELD 142
>gnl|CDD|182034 PRK09698, PRK09698, D-allose kinase; Provisional.
Length = 302
Score = 28.4 bits (64), Expect = 6.4
Identities = 11/41 (26%), Positives = 13/41 (31%)
Query: 268 AITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVD 308
A+ V S PN P +D KL PV
Sbjct: 71 ALVSKDRRTVISTPNLPLTALDLYDLADKLENTLNCPVFFS 111
>gnl|CDD|173816 cd07491, Peptidases_S8_7, Peptidase S8 family domain,
uncharacterized subfamily 7. This family is a member of
the Peptidases S8 or Subtilases serine endo- and
exo-peptidase clan. They have an Asp/His/Ser catalytic
triad similar to that found in trypsin-like proteases,
but do not share their three-dimensional structure and
are not homologous to trypsin. The stability of
subtilases may be enhanced by calcium, some members have
been shown to bind up to 4 ions via binding sites with
different affinity. Some members of this clan contain
disulfide bonds. These enzymes can be intra- and
extracellular, some function at extreme temperatures and
pH values.
Length = 247
Score = 28.5 bits (64), Expect = 6.5
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 4/42 (9%)
Query: 375 PGGNYGSPSVSGSRSGGIIATCWAAMMYFGFEAQVWICVRYH 416
+ + +G +AT AA G A + CVR
Sbjct: 196 ARDRPPLSNSFVTHTGSSVATALAA----GLAALILYCVRLR 233
>gnl|CDD|225576 COG3033, TnaA, Tryptophanase [Amino acid transport and metabolism].
Length = 471
Score = 28.6 bits (64), Expect = 6.6
Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 7/44 (15%)
Query: 267 SAITGNTVMLVGSMPNFPYGTMDDIGAIAKLGEKYGIPVHVDCC 310
IT N+ G P +M ++ A+ ++ +KY IPV +D
Sbjct: 191 LTITNNSA---GGQPV----SMANMKAVYEIAKKYDIPVVMDAA 227
>gnl|CDD|226585 COG4100, COG4100, Cystathionine beta-lyase family protein involved
in aluminum resistance [Inorganic ion transport and
metabolism].
Length = 416
Score = 28.5 bits (64), Expect = 7.6
Identities = 19/80 (23%), Positives = 36/80 (45%), Gaps = 12/80 (15%)
Query: 245 FGMKVKHIRLTSSYTVDLAALQSAITGNTVMLV-------GSMPNFPYGTMDDIGAIAKL 297
FG+K K + LT+ +D+ A+++AI+ T ++ P+ + +I +
Sbjct: 138 FGIKYKAVPLTADGKIDIQAVKTAISDRTKLIGIQRSKGYAWRPSLS---IAEIEEMITF 194
Query: 298 --GEKYGIPVHVDCCLGGFL 315
+ V VD C G F+
Sbjct: 195 VKEINPNVIVFVDNCYGEFV 214
>gnl|CDD|188595 TIGR04080, rSAM_pep_cyc, KxxxW cyclic peptide radical SAM maturase.
Members of this family are radical SAM enzymes that
appear to perform a cyclization on an adjacent cognate
peptide from family TIGR04079. Genomes with the complete
system include Streptococcus thermophilus LMD-9 and
Lactococcus lactis subsp. cremoris MG1363, among others.
The gene symbol assigned is kwcM, for KxxxW Cyclic
peptide Maturase [Protein fate, Protein modification and
repair].
Length = 440
Score = 28.4 bits (63), Expect = 8.7
Identities = 19/65 (29%), Positives = 28/65 (43%), Gaps = 5/65 (7%)
Query: 14 ISINSQFVNKEPWQIVAMTTASVLTTVYVYESLFSRDPFDTDSLTGKLKKRVFKLARKIP 73
I+ N+Q + K I+A + +T V ES+ D F L G R +LA+
Sbjct: 184 ITTNAQEIKKSTIDIIAKS--DYITPVISLESI---DDFKNFELMGTRPDRGIELAKLFH 238
Query: 74 AVRKK 78
KK
Sbjct: 239 ERGKK 243
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
0.322 0.138 0.431
Gapped
Lambda K H
0.267 0.0693 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 22,557,133
Number of extensions: 2200807
Number of successful extensions: 2419
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2356
Number of HSP's successfully gapped: 126
Length of query: 435
Length of database: 10,937,602
Length adjustment: 100
Effective length of query: 335
Effective length of database: 6,502,202
Effective search space: 2178237670
Effective search space used: 2178237670
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 60 (27.0 bits)