RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 017726
(367 letters)
>gnl|CDD|178031 PLN02409, PLN02409, serine--glyoxylate aminotransaminase.
Length = 401
Score = 705 bits (1821), Expect = 0.0
Identities = 289/358 (80%), Positives = 326/358 (91%)
Query: 1 MDYMYAPGKNHLFVPGPVHIPDQVIRAMNRNNEDYRSPAVPALTKTLLEDIKKIFKTTSG 60
MDY+YAPG+NHLFVPGPV+IP++V+RAMNR NED+RSPA PALTK LLED+K IFKT SG
Sbjct: 1 MDYVYAPGRNHLFVPGPVNIPERVLRAMNRPNEDHRSPAFPALTKELLEDVKYIFKTKSG 60
Query: 61 TPFLIPTTGTGAWESALTNTLSPGDRIISFLIGQFSLLWIDQQQRLNFNVDVVESDWGEG 120
TPF+ PTTGTGAWESALTNTLSPGD+++SF IGQFSLLWIDQ QRLNF+VDVVES WG+G
Sbjct: 61 TPFIFPTTGTGAWESALTNTLSPGDKVVSFRIGQFSLLWIDQMQRLNFDVDVVESPWGQG 120
Query: 121 AKLDVLASKLAADTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALFLVDGVSSI 180
A LD+L SKL DT H IKA+C+VHNET+TGVTN+L+ VRKLLD +HPAL LVDGVSSI
Sbjct: 121 ADLDILKSKLRQDTNHKIKAVCVVHNETSTGVTNDLAGVRKLLDCAQHPALLLVDGVSSI 180
Query: 181 CAIDFRMDEWGIDVALTGSQKALSLPTGMGIVCASPKALEASKTAKSVRVFFDWKDYIKF 240
A+DFRMDEWG+DVALTGSQKALSLPTG+GIVCASPKALEASKTAKS RVFFDW DY+KF
Sbjct: 181 GALDFRMDEWGVDVALTGSQKALSLPTGLGIVCASPKALEASKTAKSPRVFFDWADYLKF 240
Query: 241 YNLGTFWPYTPSIQLLYGLRAALDLIFEEGLENVIERHRRLGKATRLAVEAWGLKNCTQK 300
Y LGT+WPYTPSIQLLYGLRAALDLIFEEGLENVI RH RLG+ATRLAVEAWGLK CT+K
Sbjct: 241 YKLGTYWPYTPSIQLLYGLRAALDLIFEEGLENVIARHARLGEATRLAVEAWGLKLCTKK 300
Query: 301 EEWFSDTVTAVIVPSHINSSEIVRRAWQRYNLSLGLGLNKVAGKVFRIGHLGHLNEVM 358
EW SDTVTAV+VP I+S+EIV+ AW++YNLSLGLGLNKVAGKVFRIGHLG++NE+
Sbjct: 301 PEWRSDTVTAVVVPEGIDSAEIVKNAWKKYNLSLGLGLNKVAGKVFRIGHLGNVNELQ 358
>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 = 467 bits (1203), Expect = e-166
Identities = 163/362 (45%), Positives = 218/362 (60%), Gaps = 12/362 (3%)
Query: 11 HLFVPGPVHIPDQVIRAMNRNNEDYRSPAVPALTKTLLEDIKKIFKTTSGTPFLIPTTGT 70
L +PGP ++P +V++AMNR +RSP AL +LE ++ +F+T +G FL+ +GT
Sbjct: 1 LLLIPGPSNVPPRVLKAMNRPMLGHRSPEFLALMDEILEGLRYVFQTENGLTFLLSGSGT 60
Query: 71 GAWESALTNTLSPGDRIISFLIGQFSLLWIDQQQRLNFNVDVVESDWGEGAKLDVLASKL 130
GA E+AL+N L PGD+++ + G F W D +R +VDVVE WGE + +A L
Sbjct: 61 GAMEAALSNLLEPGDKVLVGVNGVFGDRWADMAERYGADVDVVEKPWGEAVSPEEIAEAL 120
Query: 131 AADTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALFLVDGVSSICAIDFRMDEW 190
H IKA+ + HNET+TGV N L + L +H AL +VD VSS+ FRMDEW
Sbjct: 121 E---QHDIKAVTLTHNETSTGVLNPLEGIGALA--KKHDALLIVDAVSSLGGEPFRMDEW 175
Query: 191 GIDVALTGSQKALSLPTGMGIVCASPKALEASKTA-KSVRVFFDWKDYIKFYNLGTFWPY 249
G+DVA TGSQKAL P G+G + S +ALE K K +FD +K++ G +P+
Sbjct: 176 GVDVAYTGSQKALGAPPGLGPIAFSERALERIKKKTKPKGFYFDLLLLLKYWGEGYSYPH 235
Query: 250 TPSIQLLYGLRAALDLIFEEGLENVIERHRRLGKATRLAVEAWGLKNCTQKEEWFSDTVT 309
TP + LLY LR ALDLI EEGLEN RHRRL KA R +EA GLK K E S TVT
Sbjct: 236 TPPVNLLYALREALDLILEEGLENRWARHRRLAKALREGLEALGLKLLA-KPELRSPTVT 294
Query: 310 AVIVPSHINSSEIVRRAWQRYNLSLGLGLNKVAGKVFRIGHLGHLNE-----VMFNFQLL 364
AV+VP ++ E+VRR +RYN+ + GL AGKVFRIGH+G V+ +
Sbjct: 295 AVLVPEGVDGDEVVRRLMKRYNIEIAGGLGPTAGKVFRIGHMGEATREDVLGVLSALEEA 354
Query: 365 FQ 366
+
Sbjct: 355 LK 356
>gnl|CDD|223153 COG0075, COG0075, Serine-pyruvate aminotransferase/archaeal
aspartate aminotransferase [Amino acid transport and
metabolism].
Length = 383
Score = 377 bits (971), Expect = e-130
Identities = 139/345 (40%), Positives = 202/345 (58%), Gaps = 5/345 (1%)
Query: 11 HLFVPGPVHIPDQVIRAMNRNNEDYRSPAVPALTKTLLEDIKKIFKTTSGTPFLIPTTGT 70
L PGPV +P +V+ AM R +RSP + K +LE ++K+F T +G L+ +GT
Sbjct: 7 LLLTPGPVPVPPRVLLAMARPMVGHRSPDFVGIMKEVLEKLRKVFGTENGDVVLLSGSGT 66
Query: 71 GAWESALTNTLSPGDRIISFLIGQFSLLWIDQQQRLNFNVDVVESDWGEGAKLDVLASKL 130
A E+A+ + + PGD+++ + G+F + + +R V V+E +WGE + + L
Sbjct: 67 LAMEAAVASLVEPGDKVLVVVNGKFGERFAEIAERYGAEVVVLEVEWGEAVDPEEVEEAL 126
Query: 131 AADTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALFLVDGVSSICAIDFRMDEW 190
D IKA+ +VHNET+TGV N L ++ K E H AL +VD VSS+ ++DEW
Sbjct: 127 DKD--PDIKAVAVVHNETSTGVLNPLKEIAKAAKE--HGALLIVDAVSSLGGEPLKVDEW 182
Query: 191 GIDVALTGSQKALSLPTGMGIVCASPKALEASKTAKSVRVFFDWKDYIKFYNLGTFWPYT 250
GIDVA+TGSQKAL P G+ V S +ALEA + K + D K ++K+ PYT
Sbjct: 183 GIDVAITGSQKALGAPPGLAFVAVSERALEAIEERKHPSFYLDLKKWLKYMEKKGSTPYT 242
Query: 251 PSIQLLYGLRAALDLIFEEGLENVIERHRRLGKATRLAVEAWGLKNCTQKEEWFSDTVTA 310
P + L+Y LR ALDLI EEGLE I RHRRL +A R +EA GL+ E S TVTA
Sbjct: 243 PPVNLIYALREALDLILEEGLEARIARHRRLAEALRAGLEALGLELFAD-PERRSPTVTA 301
Query: 311 VIVPSHINSSEIVRRAWQRYNLSLGLGLNKVAGKVFRIGHLGHLN 355
+ VP ++ ++ R + Y + + G + GK+FRIGH+G++
Sbjct: 302 IKVPEGVDDKKVRRALLKEYGVEIAGGQGPLKGKIFRIGHMGNVR 346
>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 = 120 bits (303), Expect = 4e-31
Identities = 89/357 (24%), Positives = 143/357 (40%), Gaps = 33/357 (9%)
Query: 12 LFVPGPVHIPDQVIRAM----NRNNEDYRSPAVPALTKTLLEDIKKIFKTTSG-TPFLIP 66
L PGP+ V AM + ++ +T + + + + T L+
Sbjct: 2 LLTPGPLSTSATVRDAMLVDWCHWDSEFND-----VTDQVRDRLLALAGGDDNHTCVLLQ 56
Query: 67 TTGTGAWESALTNTLSPGDRIISFLI-GQFSLLWIDQQQRLNFNVDVVESDWGEGAKLDV 125
+GT A E+ + +L P D + LI G + + L + E L+
Sbjct: 57 GSGTFAVEATI-GSLVPRDGKLLVLINGAYGERLAKICEYLGIPHTDLNFSEYEPPDLNR 115
Query: 126 LASKLAADTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALFLVDGVSSICAIDF 185
+ LAAD I + VH+ET TG+ N L + K+ H A+ +VD +SS AI
Sbjct: 116 IEEALAADPD--ITHVATVHHETTTGILNPLEAIAKVAR--SHGAVLIVDAMSSFGAIPI 171
Query: 186 RMDEWGIDVALTGSQKALSLPTGMGIVCASPKALEASK-TAKSVRVFFDWKDYIKFYNLG 244
++E +D + + K L G G V A LEAS A+S ++ D D +
Sbjct: 172 DIEELDVDALIASANKCLEGVPGFGFVIARRDLLEASAGNARS--LYLDLYDQWAYMEKT 229
Query: 245 TFWPYTPSIQLLYGLRAALDLIFEEG-LENVIERHRRLGKATRLAVEAWGLKNCTQKEEW 303
W +TP +Y AL+ + EG + I R+RR + + A G + E W
Sbjct: 230 GKWRFTPPTHTVYAFAQALEELEAEGGVPARIARYRRNRELLVDGLRALGFQPLL-PERW 288
Query: 304 FSDTVTAVIVPSHIN------SSEIVRRAWQRYNLSLGLGLNKVAGKVFRIGHLGHL 354
S + + + P + E+ R + Y L L FRIG +G +
Sbjct: 289 QSPIIVSFLYPDDPDFDFDDFYQELKERGFVIYPGKLTL------ADTFRIGTIGEI 339
>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 = 106 bits (267), Expect = 7e-26
Identities = 70/303 (23%), Positives = 109/303 (35%), Gaps = 29/303 (9%)
Query: 12 LFVPGPVHIPDQVIRAMNRNNEDYRSPAVPAL------TKTLLEDIKKIFKTTSGTPF-- 63
L P V+ A+ DY + E+ ++ P
Sbjct: 3 LDSAATTQKPQAVLDALQEYYTDYNGNVHRGVHHLGKEATQAYEEAREKVAEFINAPSDE 62
Query: 64 -LIPTTGTGAWES------ALTNTLSPGDRIISFLIGQFS--LLWIDQQQRLNFNVDVVE 114
+I T+GT E+ +L +L PGD I+ + + + W + +R V V+
Sbjct: 63 EIIFTSGTT--EAINLVAISLGRSLKPGDEILVTEMEHHANLVPWQELAKRTGATVRVIP 120
Query: 115 SDWGEGAKLDVLASKLAADTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALFLV 174
D LD L L T K + I H TG N + ++ KL EY AL +V
Sbjct: 121 VDPNGLLDLDALEKLLTPRT----KLVAITHVSNVTGTVNPVEEIGKLAHEYG--ALVVV 174
Query: 175 DGVSSICAIDFRMDEWGIDVALTGSQKALSLPTGMGIVCASPKALEASKTAK--SVRVFF 232
D ++ + G+D K PTG+G++ LE +
Sbjct: 175 DAAQAVGHRPIDVQALGVDFLAFSGHKLYG-PTGIGVLYGRRDLLEKLPPLLGGGGMIDT 233
Query: 233 DWKDYIKFYNLGT-FWPYTPSIQLLYGLRAALDLIFEEGLENVIERHRRLGKATRLAVEA 291
F + + F TP+I + GL AALD + E GLE + + R L + A
Sbjct: 234 VSLQETTFADAPSKFEAGTPNIAGIIGLGAALDYLAEIGLEAIEKHERELAAYLYERLLA 293
Query: 292 WGL 294
Sbjct: 294 IPG 296
>gnl|CDD|223594 COG0520, csdA, Selenocysteine lyase/Cysteine desulfurase
[Posttranslational modification, protein turnover,
chaperones].
Length = 405
Score = 82.4 bits (204), Expect = 2e-17
Identities = 60/272 (22%), Positives = 101/272 (37%), Gaps = 33/272 (12%)
Query: 75 SALTNTLSPGDRIISFLI--GQFSLLWIDQQQRLNFNVDVVESDWGEGAKLDVLASKLAA 132
L +L PGD I+ + + W + +R V V+ D LD L +
Sbjct: 102 RGLGRSLKPGDEIVVSDLEHHSNIVPWQELAKRTGAKVRVIPLDDDGLLDLDALEKLITP 161
Query: 133 DTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALFLVDGVSSICAIDFRMDEWGI 192
T K + + H TG N + ++ +L + H AL LVD + + + E G
Sbjct: 162 KT----KLVALSHVSNVTGTVNPVKEIAELA--HEHGALVLVDAAQAAGHLPIDVQELGC 215
Query: 193 DVALTGSQKALSLPTGMGIVCASPKALEASKTAKSVRVFFDWKDYIKFYNLG-----TFW 247
D K L PTG+G++ + LE + F I++ +
Sbjct: 216 DFLAFSGHKWLLGPTGIGVLYVRKELLEELEP------FLGGGGMIEYVSRDEGVTLAEL 269
Query: 248 PY-----TPSIQLLYGLRAALDLIFEEGLENVIERHRRLGKATRLAVEAW----GLKNCT 298
P TP+I GL AALD + E G+E + R L T +E G++
Sbjct: 270 PLRFEAGTPNIAGAIGLAAALDYLLEIGMEAIEAHEREL---TEYLLEGLSELPGVEIYG 326
Query: 299 QKEEWFSDTVTAVIVPSHINSSEIVRRAWQRY 330
+ V+ + I+ ++ ++
Sbjct: 327 PPDADRGGIVSFNV--KGIHPHDVATLLDEKG 356
>gnl|CDD|131379 TIGR02326, transamin_PhnW, 2-aminoethylphosphonate--pyruvate
transaminase. Members of this family are
2-aminoethylphosphonate--pyruvate transaminase. This
enzyme acts on the most common type of naturally
occurring phosphonate. It interconverts
2-aminoethylphosphonate plus pyruvate with
2-phosphonoacetaldehyde plus alanine. The enzyme
phosphonoacetaldehyde hydrolase (EC 3.11.1.1), usually
encoded by an adjacent gene, then cleaves the C-P bond
of phosphonoacetaldehyde, adding water to yield
acetaldehyde plus inorganic phosphate. Species with this
pathway generally have an identified phosphonate ABC
transporter but do not also have the multisubunit C-P
lysase complex as found in Escherichia coli [Central
intermediary metabolism, Phosphorus compounds].
Length = 363
Score = 75.6 bits (186), Expect = 3e-15
Identities = 90/369 (24%), Positives = 158/369 (42%), Gaps = 44/369 (11%)
Query: 9 KNH--LFVPGPVHIPDQVIRAMNRN----NEDYRSPAVPALTKTLLEDIKKIFKTTSG-T 61
+ + L PGP+ V AM + + DY + + + + + + G T
Sbjct: 1 ERNYLLLTPGPLTTSRTVKEAMLFDWCTWDSDYNI-----VVEQIRQQLLALATAEEGYT 55
Query: 62 PFLIPTTGTGAWESALTNTLSPGDRIISFLIGQFSLLWIDQQQRLNFNVDVVESDWGEGA 121
L+ +GT A E+ + + + +++ + G + + + L + D GE
Sbjct: 56 SVLLQGSGTFAVEAVIGSAVPKDGKLLVVINGAYGARIVQIAEYLG--IPHHVVDTGEVE 113
Query: 122 KLDVLA--SKLAADTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALFLVDGVSS 179
DV+ + LAAD A I I +VH ET TG+ N + V KL +RH + +VD +SS
Sbjct: 114 PPDVVEVEAILAADPA--ITHIALVHCETTTGILNPIEAVAKLA--HRHGKVTIVDAMSS 169
Query: 180 ICAIDFRMDEWGIDVALTGSQKALSLPTGMGIVCASPKALEASK-TAKSVRV-FFDWKDY 237
I + E ID ++ + K + G G V A L A K A+S+ + +D
Sbjct: 170 FGGIPIDIAELHIDYLISSANKCIQGVPGFGFVIARQAELAACKGNARSLSLDLYDQWRC 229
Query: 238 IKFYNLGTFWPYTPSIQLLYGLRAALDLIFEEGLENVIERHRRLGKATRLAV---EAWGL 294
++ N G W +T +++ AL + +EG V RH+R + + V A G
Sbjct: 230 ME-DNHGK-WRFTSPTHVVHAFAQALLELEKEG--GVAARHQRYQQNQKTLVAGMRALGF 285
Query: 295 KNCTQKEEWFSDTVTAVIVPSHINS--SEIVRRAWQRYNLSLGLGLNKVAGKV-----FR 347
+ +E S +T+ P + ++ +R ++ G GKV FR
Sbjct: 286 EPLLD-DEIQSPIITSFYSPEDPDYRFADFYQRLKEQ-------GFVIYPGKVSQVDCFR 337
Query: 348 IGHLGHLNE 356
IG++G ++
Sbjct: 338 IGNIGEVDA 346
>gnl|CDD|184076 PRK13479, PRK13479, 2-aminoethylphosphonate--pyruvate transaminase;
Provisional.
Length = 368
Score = 69.6 bits (171), Expect = 4e-13
Identities = 75/289 (25%), Positives = 117/289 (40%), Gaps = 47/289 (16%)
Query: 12 LFVPGPVHIPDQVIRAMNRN----NEDYRSPAVPALTKTLLEDIKKIFKTTSGTPFLIPT 67
L PGP+ V AM R+ ++D+ ALT ++ + I T +P
Sbjct: 8 LLTPGPLTTSRTVREAMLRDWGSWDDDFN-----ALTASVRAKLVAI-ATGEEGYTCVPL 61
Query: 68 TGTG--AWESALTNTLSP-------------GDRIISFLIGQFSLLWIDQQQRLNFNVDV 112
G+G + E+A+ +L P G RI + L V
Sbjct: 62 QGSGTFSVEAAI-GSLVPRDGKVLVPDNGAYGARIAQIA------------EYLGIAHVV 108
Query: 113 VESDWGEGAKLDVLASKLAADTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALF 172
+++ E + + LAAD I + +VH ET TG+ N L ++ + RH
Sbjct: 109 LDTGEDEPPDAAEVEAALAADPR--ITHVALVHCETTTGILNPLDEIAAVA--KRHGKRL 164
Query: 173 LVDGVSSICAIDFRMDEWGIDVALTGSQKALSLPTGMGIVCASPKALEASK-TAKSVRVF 231
+VD +SS AI + E GID ++ + K + G G V A LEA K ++S+ +
Sbjct: 165 IVDAMSSFGAIPIDIAELGIDALISSANKCIEGVPGFGFVIARRSELEACKGNSRSLSL- 223
Query: 232 FDWKDYIKFYNLGTFWPYTPSIQLLYGLRAALDLIFEEGLENVIERHRR 280
D D + W +TP ++ AL + EEG V R R
Sbjct: 224 -DLYDQWAYMEKTGQWRFTPPTHVVAAFYQALLELEEEG--GVPARGAR 269
>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 = 56.2 bits (136), Expect = 1e-09
Identities = 46/148 (31%), Positives = 58/148 (39%), Gaps = 8/148 (5%)
Query: 69 GTGAWESALTNTLSPGDRIISFLIGQFSLLWIDQQQRLNFNVDVVESDWGEGAKLDVLAS 128
GTGA E+AL L PGD +I G S W+ + V D LDV
Sbjct: 26 GTGANEAALLALLGPGDEVIVDANGHGSRYWV-AAELAGAKPVPVPVDDAGYGGLDVAI- 83
Query: 129 KLAADTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALFLVDGVSSICAIDF--- 185
+ I I N T+ GV L ++RK+ EY L LVD S+ A
Sbjct: 84 LEELKAKPNVALIVITPNTTSGGVLVPLKEIRKIAKEYG--ILLLVDAASAGGASPAPGV 141
Query: 186 RMDEWGIDVALTGSQKALSLPTGMGIVC 213
+ E G DV K L G G+V
Sbjct: 142 LIPEGGADVVTFSLHKNLGGE-GGGVVI 168
>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 = 53.4 bits (129), Expect = 7e-08
Identities = 37/152 (24%), Positives = 61/152 (40%), Gaps = 18/152 (11%)
Query: 139 KAICIVHNETATGVTNNLSKVRKLLDEYRHPALFLVDGVSSICAIDFRMDEWGIDVALTG 198
K + I H G N + ++ KL + A LVDG ++ + + D +
Sbjct: 161 KLVAITHVSNVLGTVNPVEEIAKLAHQVG--AKVLVDGAQAVPHMPVDVQALDCDFYVFS 218
Query: 199 SQKALSLPTGMGIVCASPKALEASKTAKSVRVFFDWKDYIKFYNL-GTFW---PY----- 249
K PTG+G++ + LE + F + I + T + P+
Sbjct: 219 GHKMYG-PTGIGVLYGKEELLE------QMPPFLGGGEMIAEVSFEETTYNEAPHKFEAG 271
Query: 250 TPSIQLLYGLRAALDLIFEEGLENVIERHRRL 281
TP+I + GL AA+D + GLEN+ L
Sbjct: 272 TPNIAGVIGLGAAIDYLEAIGLENIEAHEHEL 303
>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 = 50.9 bits (123), Expect = 4e-07
Identities = 54/213 (25%), Positives = 86/213 (40%), Gaps = 21/213 (9%)
Query: 75 SALTNTLSPGDRIISFLIGQFSLL--WIDQQQRLNFNVDVVESDWGEGA-KLDVLASKLA 131
L PGD I++ ++ S + W +R + VV D +G L+ L L
Sbjct: 79 YGLGRANKPGDEIVTSVMEHHSNIVPWQQLAERTGAKLKVVPVD-DDGQLDLEALEKLLT 137
Query: 132 ADTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALFLVDGVSSICAIDFRMDEWG 191
T K + + H G N + ++ ++ E LVDG S + + + G
Sbjct: 138 ERT----KLVAVTHVSNVLGTINPVKEIGEIAHE--AGVPVLVDGAQSAGHMPVDVQDLG 191
Query: 192 ID-VALTGSQKALSLPTGMGIVCASPKALEASK-----TAKSVRVFFDWKDYIKFYNLGT 245
D +A +G K L PTG+G++ + LE V F+ Y +
Sbjct: 192 CDFLAFSG-HKML-GPTGIGVLYGKEELLEEMPPYGGGGEMIEEVSFEETTYADLPH--K 247
Query: 246 FWPYTPSIQLLYGLRAALDLIFEEGLENVIERH 278
F TP+I GL AA+D + + G+E I H
Sbjct: 248 FEAGTPNIAGAIGLGAAIDYLEKIGMEA-IAAH 279
>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 = 49.3 bits (118), Expect = 1e-06
Identities = 57/282 (20%), Positives = 104/282 (36%), Gaps = 37/282 (13%)
Query: 21 PDQVIRAMNRNNEDY-----RSPAVPALTKTLL-----EDIKKIFKTTSGTPFLIPTTGT 70
PD+V AM ++Y R AL + + + K+F S + T
Sbjct: 13 PDEVYEAMADFYKNYGGSPGRGRYRLALRASREVEETRQLLAKLFNAPSSAHVVFTNNAT 72
Query: 71 GAWESALTNTLSPGDRIISFLIGQFSLLWIDQQ--QRLNFNVDVVESDWGEGAKLDV--L 126
A AL L GD +I+ + S+ + +++ + +V+ D + +
Sbjct: 73 TALNIALKGLLKEGDHVITTPMEHNSVARPLECLKEQIGVEITIVKCD--NEGLISPERI 130
Query: 127 ASKLAADTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALFLVDGVSSICAIDFR 186
+ +T K I + H TG + ++ +L E + F++D + I
Sbjct: 131 KRAIKTNT----KLIVVSHASNVTGTILPIEEIGELAQE--NGIFFILDAAQTAGVIPID 184
Query: 187 MDEWGID-VALTGSQKALSLPTGM-GIVCASPKALEASKTAKSVRVFFDWKDYIKFYNLG 244
M E ID +A TG K L P G G+ L+ K+ + +
Sbjct: 185 MTELAIDMLAFTG-HKGLLGPQGTGGLYIREGIKLKPLKSGGTGSHSALI-------DQP 236
Query: 245 TFWPY-----TPSIQLLYGLRAALDLIFEEGLENVIERHRRL 281
+ P T + + GL A + I + G+ N+ ++ L
Sbjct: 237 SELPDRFESGTLNTPGIAGLNAGIKFIEKIGIANIAKKECML 278
>gnl|CDD|235103 PRK03080, PRK03080, phosphoserine aminotransferase; Provisional.
Length = 378
Score = 46.7 bits (112), Expect = 1e-05
Identities = 53/190 (27%), Positives = 79/190 (41%), Gaps = 23/190 (12%)
Query: 36 RSPAVPALTKTLLEDIKKIFKTTSGTPFLI-PTTGTGAWESALTNTLSPGDRIISFLI-G 93
R V AL K ++E +++ G I P + TGAWE AL + L G R + L
Sbjct: 42 RQKPVKALLKRVIEGTRELLSLPEGYEVGIVPGSDTGAWEMALWSLL--GARRVDHLAWE 99
Query: 94 QFSLLW---IDQQQRLNFNVDVVESDWGEGAKLDVLASKLAADTAHTIKAICIVHNETAT 150
F W + +Q +L + V+E+D+G L A D + N T T
Sbjct: 100 SFGSKWATDVVKQLKLE-DPRVLEADYGSLPDLS------AVDFDRDV---VFTWNGTTT 149
Query: 151 GVTNNLSKVRKLLDEYRHPALFLVDGVSSICAIDFRMDEWGIDVALTGSQKALSLPTGMG 210
GV V + + R L + D S+ A+ + +DV QK L G G
Sbjct: 150 GVR---VPVARWIGADRE-GLTICDATSAAFALPLDWSK--LDVYTFSWQKVLGGEGGHG 203
Query: 211 IVCASPKALE 220
+ SP+A+E
Sbjct: 204 MAILSPRAVE 213
>gnl|CDD|224843 COG1932, SerC, Phosphoserine aminotransferase [Coenzyme metabolism
/ Amino acid transport and metabolism].
Length = 365
Score = 45.7 bits (109), Expect = 2e-05
Identities = 56/261 (21%), Positives = 100/261 (38%), Gaps = 34/261 (13%)
Query: 36 RSPAVPALTKTLLEDIKKIFKTTSGTPFLI-PTTGTGAWESALTNTLSPG--DRIISFLI 92
RS + + +D++++ L TG + A N L D + +
Sbjct: 44 RSKEFKNVLEEAEKDLRELLNIPDDYKVLFLQGGATGQFAMAPMNLLGKRGTDYVDTGAW 103
Query: 93 GQFSLLWIDQQQRLNFNVDVVESDWGEGAKLDVLASKLAADTAHTIKAICIVHNETATGV 152
+F++ + + +D + G G+ D+ + + A+ + NET +GV
Sbjct: 104 SEFAIKEAKKVGKQPKLIDARIEEAGYGSIPDLSKWDFSDNDAY----VHFCWNETISGV 159
Query: 153 TNNLSKVRKLLDEYRHPALFLVDGVSSICA--IDFRMDEWGIDVALTGSQKALSLPTGMG 210
+V +L + L + D S+I + ID DV G+QK L P G+
Sbjct: 160 -----EVPEL-PDIGSDGLLVADASSAILSRPIDVS----KYDVIYAGAQKNLG-PAGLT 208
Query: 211 IVCASPKALEASKTAKSVRVFFDWKDYIK---FYNLGTFWPYTPSIQLLYGLRAALDLIF 267
+V P LE +++ + FD+ + YN TP Y L +
Sbjct: 209 VVIVRPDLLERAESYTLPSI-FDYLTHADNGSMYN-------TPPTFAWYLLGLVFKWLK 260
Query: 268 EE-GLENVIERHRRLGKATRL 287
+ GLE + R++ KA L
Sbjct: 261 SQGGLEALEARNQA--KAQLL 279
>gnl|CDD|130433 TIGR01366, serC_3, phosphoserine aminotransferase, putative. This
model represents a putative variant form of the serine
biosynthesis enzyme phosphoserine aminotransferase, as
found in Mycobacterium tuberculosis and related high-GC
Gram-positive bacteria [Amino acid biosynthesis, Serine
family].
Length = 361
Score = 34.5 bits (79), Expect = 0.078
Identities = 43/189 (22%), Positives = 71/189 (37%), Gaps = 21/189 (11%)
Query: 35 YRSPAVPALTKTLLEDIKKIFKTTSGTPFLIPTTGTGA-WESALTNTLSPGDRIISFLIG 93
+R V L + E + ++F G ++ G A W++A + +SF G
Sbjct: 34 HRQAPVKNLVGRVREGLAELFSLPDGYEVILGNGGATAFWDAATFGLIEKKSLHLSF--G 91
Query: 94 QFSLLWIDQQQRLNF--NVDVVESDWGEGAKLDVLASKLAADTAHTIKAICIVHNETATG 151
+FS + + + +V +D G S + I HNET+TG
Sbjct: 92 EFSSKFAKAVKLAPWLGEPIIVTADPG---------SAPEPQADPGVDVIAWAHNETSTG 142
Query: 152 VTNNLSKVRKLLDEYRHPALFLVDGVSSICAIDFRMDEWGIDVALTGSQKALSLPTGMGI 211
V + + E AL ++D S + + E DV QK + G+ +
Sbjct: 143 VAVPVRRP-----EGSDDALVVIDATSGAGGLPVDIAE--TDVYYFAPQKNFASDGGLWL 195
Query: 212 VCASPKALE 220
SP ALE
Sbjct: 196 AIMSPAALE 204
>gnl|CDD|223513 COG0436, COG0436, Aspartate/tyrosine/aromatic aminotransferase
[Amino acid transport and metabolism].
Length = 393
Score = 31.9 bits (73), Expect = 0.55
Identities = 22/78 (28%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 15 PGPVHIPDQVIRAMNRNNEDYRSPA-VPALTKTLLEDIKKIFKTTSGTPFLIPTTGTGAW 73
P P HI + I A+ Y A +P L + + E K+ + I T GA
Sbjct: 41 PTPEHIIEAAIEALEEGGTHYTPSAGIPELREAIAEKYKRRYGLDVDPEEEIIVT-AGAK 99
Query: 74 E---SALTNTLSPGDRII 88
E A L+PGD ++
Sbjct: 100 EALFLAFLALLNPGDEVL 117
>gnl|CDD|224029 COG1104, NifS, Cysteine sulfinate desulfinase/cysteine desulfurase
and related enzymes [Amino acid transport and
metabolism].
Length = 386
Score = 31.8 bits (73), Expect = 0.57
Identities = 31/117 (26%), Positives = 50/117 (42%), Gaps = 13/117 (11%)
Query: 104 QRLNFNVDVVESDWGEG-AKLDVLASKLAADTAHTIKAICI--VHNETATGVTNNLSKVR 160
+R F V + D G L+ L L DT + I +NET G ++++
Sbjct: 112 ERQGFEVTYLPVD-SNGLVDLEQLEEALRPDTI----LVSIMHANNET--GTIQPIAEIG 164
Query: 161 KLLDEYRHPALFLVDGVSSICAIDFRMDEWGIDVALTGSQKALSLPTGMGIVCASPK 217
++ E LF VD V ++ I ++E G+D L+ S P G+G + P
Sbjct: 165 EICKE--RGILFHVDAVQAVGKIPIDLEELGVD-LLSFSAHKFGGPKGIGALYVRPG 218
>gnl|CDD|184996 PRK15036, PRK15036, hydroxyisourate hydrolase; Provisional.
Length = 137
Score = 29.2 bits (65), Expect = 1.6
Identities = 24/65 (36%), Positives = 30/65 (46%), Gaps = 6/65 (9%)
Query: 193 DVALTGSQKA----LSLPTGMGIVCASPKALEASKTAKS--VRVFFDWKDYIKFYNLGTF 246
DV +T +KA L L T KAL +TA + RV F DY K NL +F
Sbjct: 44 DVTVTLEKKADNGWLQLNTAKTDKDGRIKALWPEQTATTGDYRVVFKTGDYFKKQNLESF 103
Query: 247 WPYTP 251
+P P
Sbjct: 104 FPEIP 108
>gnl|CDD|99813 cd06217, FNR_iron_sulfur_binding_3, Iron-sulfur binding ferredoxin
reductase (FNR) proteins combine the FAD and NAD(P)
binding regions of FNR with an iron-sulfur binding
cluster domain. Ferredoxin-NADP+ (oxido)reductase is an
FAD-containing enzyme that catalyzes the reversible
electron transfer between NADP(H) and electron carrier
proteins such as ferredoxin and flavodoxin. Isoforms of
these flavoproteins (i.e. having a non-covalently bound
FAD as a prosthetic group) are present in chloroplasts,
mitochondria, and bacteria in which they participate in
a wide variety of redox metabolic pathways. The
C-terminal domain contains most of the NADP(H) binding
residues and the N-terminal domain interacts
non-covalently with the isoalloxazine rings of the
flavin molecule which lies largely in a large gap
between the two domains. Ferredoxin-NADP+ reductase
first accepts one electron from reduced ferredoxin to
form a flavin semiquinone intermediate. The enzyme then
accepts a second electron to form FADH2 which then
transfers two electrons and a proton to NADP+ to form
NADPH.
Length = 235
Score = 29.5 bits (67), Expect = 2.3
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 253 IQLLYGLRAALDLIFEEGLENVIERHRRL 281
+LLY R A D+IF + LE + RH L
Sbjct: 138 FRLLYSARTAEDVIFRDELEQLARRHPNL 166
>gnl|CDD|237203 PRK12790, PRK12790, chemotactic signal-response protein CheL;
Provisional.
Length = 115
Score = 28.6 bits (64), Expect = 2.4
Identities = 20/56 (35%), Positives = 23/56 (41%), Gaps = 11/56 (19%)
Query: 37 SPAVPALTKTLLEDIKKIF------KTTSGT----PFLIPTTGTGAWESALTNTLS 82
SP A K D + +F + TSG PF T GTG W S LT S
Sbjct: 33 SPQAQAKAKATATDFEAMFLNSMFSQMTSGLKGEGPFG-DTVGTGVWRSMLTEQYS 87
>gnl|CDD|234651 PRK00125, pyrF, orotidine 5'-phosphate decarboxylase; Reviewed.
Length = 278
Score = 29.4 bits (67), Expect = 2.7
Identities = 15/68 (22%), Positives = 19/68 (27%), Gaps = 11/68 (16%)
Query: 11 HLFVPGPVHIPDQVIRAMNRNNEDYRSPA------VPALTKTLLEDIKKIFKTTSGTPFL 64
L + V N V A T ++ + K G P L
Sbjct: 160 FLRTADGRPLYQHVADLAAALNNLGNCGYGSIGLVVGA---TFPPELAAVRKILGGMPLL 216
Query: 65 IPTTGTGA 72
IP G GA
Sbjct: 217 IP--GIGA 222
>gnl|CDD|236202 PRK08249, PRK08249, cystathionine gamma-synthase; Provisional.
Length = 398
Score = 29.3 bits (66), Expect = 3.2
Identities = 30/133 (22%), Positives = 56/133 (42%), Gaps = 26/133 (19%)
Query: 45 KTLLEDIKKIFKTTSGTPFLIPTTGTGAWESALTNTLSPGDRIISF--LIGQFSLLWIDQ 102
+ E ++ + + T F +TG A + L L PGDR++S G + ++ +
Sbjct: 67 QAFEEKVRILEGAEAATAF---STGMAAISNTLYTFLKPGDRVVSIKDTYGGTNKIFTEF 123
Query: 103 QQRLNFNV--------DVVESDWGEGAKLDVLAS------------KLAADTAHTIKAIC 142
R+ +V + +E++ +G L L + +LAA A + A+
Sbjct: 124 LPRMGVDVTLCETGDHEQIEAEIAKGCDLLYLETPTNPTLKIVDIERLAA-AAKKVGALV 182
Query: 143 IVHNETATGVTNN 155
+V N AT + N
Sbjct: 183 VVDNTFATPINQN 195
>gnl|CDD|224396 COG1479, COG1479, Uncharacterized conserved protein [Function
unknown].
Length = 409
Score = 28.8 bits (64), Expect = 5.4
Identities = 9/40 (22%), Positives = 13/40 (32%)
Query: 222 SKTAKSVRVFFDWKDYIKFYNLGTFWPYTPSIQLLYGLRA 261
+ S+ KD FY + Y LL G+
Sbjct: 341 RRAVDSIETEILNKDNALFYGILDKELYAFLFLLLKGVLR 380
>gnl|CDD|140327 PTZ00306, PTZ00306, NADH-dependent fumarate reductase; Provisional.
Length = 1167
Score = 29.0 bits (65), Expect = 5.4
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 148 TATGVTNNLSKVRKLLDEYRH 168
TA+ V + KVR +L+ +R+
Sbjct: 348 TASLVKRDPVKVRYMLENWRY 368
>gnl|CDD|233052 TIGR00612, ispG_gcpE, 1-hydroxy-2-methyl-2-(E)-butenyl
4-diphosphate synthase. This protein of previously
unknown biochemical function has now been identified as
an enzyme of the non-mevalonate pathway of IPP
biosynthesis. Chlamydial members of the family have a
long insert. The family is largely restricted to
Bacteria, where it is widely but not universally
distributed. No homology can be detected between the
GcpE family and other proteins [Biosynthesis of
cofactors, prosthetic groups, and carriers, Other].
Length = 346
Score = 28.5 bits (64), Expect = 5.4
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 266 IFEEGLENVIERHRRLGKATRLAVEAWGLKNCTQKEEWFSDTVTAVIVPSHINSSEI 322
FEE + +++E+ RR GKA R+ V G E++ T A +V S + +EI
Sbjct: 105 GFEERVRDIVEKARRHGKAMRIGVN-HGSLERRLLEKYGDPTAEA-MVQSALEWAEI 159
>gnl|CDD|236061 PRK07582, PRK07582, cystathionine gamma-lyase; Validated.
Length = 366
Score = 28.4 bits (64), Expect = 5.6
Identities = 25/101 (24%), Positives = 36/101 (35%), Gaps = 18/101 (17%)
Query: 68 TGTGAWESALTNTLSPGDRIISFLIGQFSLLWIDQQQRLNFNVDVVE-------SDWGEG 120
+G A + L L PGD ++ G + + + ++ V V E G
Sbjct: 73 SGMAAITAVLRALLRPGDTVVVPADGYYQVRALAREYLAPLGVTVREAPTAGMAEAALAG 132
Query: 121 AK-----------LDVLASKLAADTAHTIKAICIVHNETAT 150
A LDV A AH A+ +V N TAT
Sbjct: 133 ADLVLAETPSNPGLDVCDLAALAAAAHAAGALLVVDNTTAT 173
>gnl|CDD|218652 pfam05602, CLPTM1, Cleft lip and palate transmembrane protein 1
(CLPTM1). This family consists of several eukaryotic
cleft lip and palate transmembrane protein 1 sequences.
Cleft lip with or without cleft palate is a common birth
defect that is genetically complex. The nonsyndromic
forms have been studied genetically using linkage and
candidate-gene association studies with only partial
success in defining the loci responsible for orofacial
clefting. CLPTM1 encodes a transmembrane protein and has
strong homology to two Caenorhabditis elegans genes,
suggesting that CLPTM1 may belong to a new gene family.
This family also contains the human cisplatin resistance
related protein CRR9p which is associated with
CDDP-induced apoptosis.
Length = 437
Score = 28.8 bits (65), Expect = 5.8
Identities = 13/42 (30%), Positives = 22/42 (52%), Gaps = 9/42 (21%)
Query: 206 PTGMGIVCASPKALEASKTAKSVRVFFDWKD---YIKFYNLG 244
G+G++ +EA K K+V+V W+ YI+F + G
Sbjct: 364 SQGIGLL------IEAWKITKAVKVRIRWRGFIPYIEFEDKG 399
>gnl|CDD|165206 PHA02875, PHA02875, ankyrin repeat protein; Provisional.
Length = 413
Score = 28.4 bits (63), Expect = 6.2
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 152 VTNNLSKVRKLLDEYRHPALFLVDGVSSI-CAIDFR 186
+ L R+LLD +P + DG+S I A+ FR
Sbjct: 11 LFGELDIARRLLDIGINPNFEIYDGISPIKLAMKFR 46
>gnl|CDD|234325 TIGR03713, acc_sec_asp1, accessory Sec system protein Asp1. This
protein is designated Asp1 because, along with SecY2,
SecA2, and other proteins it is part of the accessory
secretory protein system. The system is involved in the
export of serine-rich glycoproteins important for
virulence in a number of Gram-positive species,
including Streptococcus gordonii and Staphylococcus
aureus. This protein family is assigned to transport
rather than glycosylation function, but the specific
molecular role is unknown [Protein fate, Protein and
peptide secretion and trafficking, Cellular processes,
Pathogenesis].
Length = 519
Score = 27.7 bits (62), Expect = 9.8
Identities = 13/57 (22%), Positives = 26/57 (45%), Gaps = 4/57 (7%)
Query: 124 DVLASKLAADTAHTIKAICIVHNETATGVTNNLSKVRKLLDEYRHPALFL-VDGVSS 179
+L + I A + NE + + L K+R ++D + P L+ + G+S+
Sbjct: 397 PILQTDEEQKEKERI-AFTTLTNEE--DLISALDKLRLIIDLSKEPDLYTQISGISA 450
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
0.321 0.137 0.418
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 19,078,890
Number of extensions: 1846590
Number of successful extensions: 1728
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1699
Number of HSP's successfully gapped: 35
Length of query: 367
Length of database: 10,937,602
Length adjustment: 98
Effective length of query: 269
Effective length of database: 6,590,910
Effective search space: 1772954790
Effective search space used: 1772954790
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 (26.8 bits)