RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9711
(198 letters)
>gnl|CDD|188630 cd00408, DHDPS-like, Dihydrodipicolinate synthase family.
Dihydrodipicolinate synthase family. A member of the
class I aldolases, which use an active-site lysine which
stabilizes a reaction intermediate via Schiff base
formation, and have TIM beta/alpha barrel fold. The
dihydrodipicolinate synthase family comprises several
pyruvate-dependent class I aldolases that use the same
catalytic step to catalyze different reactions in
different pathways and includes such proteins as
N-acetylneuraminate lyase, MosA protein,
5-keto-4-deoxy-glucarate dehydratase,
trans-o-hydroxybenzylidenepyruvate hydratase-aldolase,
trans-2'-carboxybenzalpyruvate hydratase-aldolase, and
2-keto-3-deoxy- gluconate aldolase. The family is also
referred to as the N-acetylneuraminate lyase (NAL)
family.
Length = 281
Score = 188 bits (480), Expect = 5e-60
Identities = 70/195 (35%), Positives = 107/195 (54%), Gaps = 7/195 (3%)
Query: 8 TEEEKLKIISTLRQETKK--TIIAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQKK 65
T+EE+ ++I + + +IAG STR I+L + A +AGA+ L++ PYY K
Sbjct: 48 TDEERKEVIEAVVEAVAGRVPVIAGVGANSTREAIELARHAEEAGADGVLVVPPYYN--K 105
Query: 66 MTEDLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKLAHHENIRGVKDT--DNIK 123
+++ I HF +VAD S +PVI+YN T +D+S +T+ +LA H NI G+KD+ D +
Sbjct: 106 PSQEGIVAHFKAVADASDLPVILYNIPGRTGVDLSPETIARLAEHPNIVGIKDSSGDLDR 165
Query: 124 LANMANQTKDLNFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPICELYDLAKAGKWEE 183
L + +F+V +G LL L +G G I+ + V LY+ A+AG EE
Sbjct: 166 LTRLIALLGP-DFAVLSGDDDLLLPALALGADGAISGAANVAPKLAVALYEAARAGDLEE 224
Query: 184 AMKLQHRLVKPDVTL 198
A LQ RL+ L
Sbjct: 225 ARALQDRLLPLIEAL 239
>gnl|CDD|223406 COG0329, DapA, Dihydrodipicolinate synthase/N-acetylneuraminate
lyase [Amino acid transport and metabolism / Cell
envelope biogenesis, outer membrane].
Length = 299
Score = 165 bits (419), Expect = 1e-50
Identities = 67/190 (35%), Positives = 105/190 (55%), Gaps = 6/190 (3%)
Query: 8 TEEEKLKIISTLRQETKK--TIIAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQKK 65
T EE+ +++ + + +IAG ST I+L + A K GA+ L++ PYY K
Sbjct: 55 TLEERKEVLEAVVEAVGGRVPVIAGVGSNSTAEAIELAKHAEKLGADGILVVPPYYN--K 112
Query: 66 MTEDLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKLAHHENIRGVKD-TDNI-K 123
+++ +Y HF ++A+ +PVI+YN T +D+S +T+ +LA H NI GVKD + ++ +
Sbjct: 113 PSQEGLYAHFKAIAEAVDLPVILYNIPSRTGVDLSPETIARLAEHPNIVGVKDSSGDLDR 172
Query: 124 LANMANQTKDLNFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPICELYDLAKAGKWEE 183
L + D +F V +G L LL+G G I+ + V ELY AKAG EE
Sbjct: 173 LEEIIAALGDRDFIVLSGDDELALPALLLGADGVISVTANVAPELAVELYRAAKAGDIEE 232
Query: 184 AMKLQHRLVK 193
A +LQ RL+
Sbjct: 233 ARELQDRLLP 242
>gnl|CDD|188637 cd00950, DHDPS, Dihydrodipicolinate synthase (DHDPS).
Dihydrodipicolinate synthase (DHDPS) is a key enzyme in
lysine biosynthesis. It catalyzes the aldol condensation
of L-aspartate-beta- semialdehyde and pyruvate to
dihydropicolinic acid via a Schiff base formation
between pyruvate and a lysine residue. The functional
enzyme is a homotetramer consisting of a dimer of
dimers. DHDPS is member of dihydrodipicolinate synthase
family that comprises several pyruvate-dependent class I
aldolases that use the same catalytic step to catalyze
different reactions in different pathways.
Length = 284
Score = 149 bits (379), Expect = 9e-45
Identities = 61/193 (31%), Positives = 108/193 (55%), Gaps = 17/193 (8%)
Query: 8 TEEEKLKIISTLRQETKKTI--IAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQKK 65
++EE +I + + + IAGT +T I+LT++A KAGA+AAL++ PYY K
Sbjct: 51 SDEEHEAVIEAVVEAVNGRVPVIAGTGSNNTAEAIELTKRAEKAGADAALVVTPYY--NK 108
Query: 66 MTEDLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKLAHHENIRGVKD-TDNIKL 124
+++ +Y HF ++A+ + +PVI+YN T ++I +T+++LA H NI G+K+ T ++
Sbjct: 109 PSQEGLYAHFKAIAEATDLPVILYNVPGRTGVNIEPETVLRLAEHPNIVGIKEATGDL-- 166
Query: 125 ANMANQTKDL------NFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPICELYDLAKA 178
++ +L +F+V +G L L +G G I+ + V + E+ A A
Sbjct: 167 ----DRVSELIALCPDDFAVLSGDDALTLPFLALGGVGVISVAANVAPKLMAEMVRAALA 222
Query: 179 GKWEEAMKLQHRL 191
G E+A +L +L
Sbjct: 223 GDLEKARELHRKL 235
>gnl|CDD|235107 PRK03170, PRK03170, dihydrodipicolinate synthase; Provisional.
Length = 292
Score = 144 bits (366), Expect = 8e-43
Identities = 63/189 (33%), Positives = 108/189 (57%), Gaps = 5/189 (2%)
Query: 8 TEEEKLKIISTLRQETKK--TIIAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQKK 65
T EE ++I + + +IAGT ST I+LT+ A KAGA+ AL++ PYY K
Sbjct: 52 THEEHEELIRAVVEAVNGRVPVIAGTGSNSTAEAIELTKFAEKAGADGALVVTPYY--NK 109
Query: 66 MTEDLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKLAHHENIRGVKD-TDNIKL 124
T++ +Y+HF ++A+ + +P+I+YN T +DI +T+ +LA H NI G+K+ T +++
Sbjct: 110 PTQEGLYQHFKAIAEATDLPIILYNVPGRTGVDILPETVARLAEHPNIVGIKEATGDLER 169
Query: 125 ANMANQTKDLNFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPICELYDLAKAGKWEEA 184
+ + +F+V++G L L +G G I+ + V + E+ D A AG + EA
Sbjct: 170 VSELIELVPDDFAVYSGDDALALPFLALGGVGVISVAANVAPKEMAEMCDAALAGDFAEA 229
Query: 185 MKLQHRLVK 193
++ RL+
Sbjct: 230 REIHRRLLP 238
>gnl|CDD|201403 pfam00701, DHDPS, Dihydrodipicolinate synthetase family. This
family has a TIM barrel structure.
Length = 289
Score = 120 bits (303), Expect = 2e-33
Identities = 59/185 (31%), Positives = 95/185 (51%), Gaps = 5/185 (2%)
Query: 10 EEKLKIISTLRQETKKTI--IAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQKKMT 67
EE ++I E K I IAGT STR I L Q A AGA+ L + PYY K +
Sbjct: 54 EEHEQLIEITVDEAKGRIPVIAGTGSNSTREAIHLAQLAEAAGADGVLAVTPYYN--KPS 111
Query: 68 EDLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKLAHHENIRGVKDT-DNIKLAN 126
++ +Y+HF ++A + +PVI+YN T D++ +T+ +LA N+ GVKD +++
Sbjct: 112 QEGLYQHFKAIAAATDLPVILYNVPSRTGQDLTPETIERLAECPNVVGVKDAVGDLERME 171
Query: 127 MANQTKDLNFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPICELYDLAKAGKWEEAMK 186
+ +F++ +G LS L +G G I+ S + + ++Y K G + A
Sbjct: 172 NIRKRAGPDFTILSGDDETALSYLSLGADGVISVTSNIAPKLMRDIYRALKNGDFATAAL 231
Query: 187 LQHRL 191
L +L
Sbjct: 232 LNEKL 236
>gnl|CDD|129757 TIGR00674, dapA, dihydrodipicolinate synthase. Dihydrodipicolinate
synthase is a homotetrameric enzyme of lysine
biosynthesis. E. coli has several paralogs closely
related to dihydrodipicoline synthase (DapA), as well as
the more distant N-acetylneuraminate lyase. In
Pyrococcus horikoshii, the bidirectional best hit with
E. coli is to an uncharacterized paralog of DapA, not
DapA itself, and it is omitted from the seed. The
putative members from the Chlamydias (pathogens with a
parasitic metabolism) are easily the most divergent
members of the multiple alignment [Amino acid
biosynthesis, Aspartate family].
Length = 285
Score = 108 bits (272), Expect = 5e-29
Identities = 52/189 (27%), Positives = 95/189 (50%), Gaps = 5/189 (2%)
Query: 8 TEEEKLKIISTLRQETKKT--IIAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQKK 65
+ EE K+I + +IAGT +T I LT+ A GA+ L++ PYY K
Sbjct: 49 SHEEHKKVIEFVVDLVNGRVPVIAGTGSNATEEAISLTKFAEDVGADGFLVVTPYY--NK 106
Query: 66 MTEDLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKLAHHENIRGVKD-TDNIKL 124
T++ +Y+HF ++A+ +P+I+YN T + + +T+ +LA NI +K+ T N++
Sbjct: 107 PTQEGLYQHFKAIAEEVDLPIILYNVPSRTGVSLYPETVKRLAEEPNIVAIKEATGNLER 166
Query: 125 ANMANQTKDLNFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPICELYDLAKAGKWEEA 184
+ +F V +G L + +G G I+ + V + E+ + A G + EA
Sbjct: 167 ISEIKAIAPDDFVVLSGDDALTLPMMALGGKGVISVTANVAPKLMKEMVNNALEGDFAEA 226
Query: 185 MKLQHRLVK 193
++ +L+
Sbjct: 227 REIHQKLMP 235
>gnl|CDD|188641 cd00954, NAL, N-Acetylneuraminic acid aldolase, also called
N-acetylneuraminate lyase (NAL). N-Acetylneuraminic
acid aldolase, also called N-acetylneuraminate lyase
(NAL), which catalyses the reversible aldol reaction of
N-acetyl-D-mannosamine and pyruvate to give
N-acetyl-D-neuraminic acid (D-sialic acid). It has a
widespread application as biocatalyst for the synthesis
of sialic acid and its derivatives. This enzyme has been
shown to be quite specific for pyruvate as the donor,
but flexible to a variety of D- and, to some extent,
L-hexoses and pentoses as acceptor substrates. NAL is
member of dihydrodipicolinate synthase family that
comprises several pyruvate-dependent class I aldolases.
Length = 288
Score = 84.3 bits (209), Expect = 8e-20
Identities = 45/187 (24%), Positives = 89/187 (47%), Gaps = 7/187 (3%)
Query: 7 STEEEKLKIISTLRQETKK--TIIAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQK 64
S EE K I + + K T+IA + + + +L + A + G +A + P+Y+
Sbjct: 52 SVEERKQ-IAEIVAEAAKGKVTLIAHVGSLNLKESQELAKHAEELGYDAISAITPFYY-- 108
Query: 65 KMTEDLIYEHFISVADNSP-IPVIIYNNTFVTNIDISVDTLVKLAHHENIRGVKDTD-NI 122
K + + I +++ + + +P+IIY+ +T ++++++ ++L N+ GVK T ++
Sbjct: 109 KFSFEEIKDYYREIIAAAASLPMIIYHIPALTGVNLTLEQFLELFEIPNVIGVKFTATDL 168
Query: 123 KLANMANQTKDLNFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPICELYDLAKAGKWE 182
+ V G LLS L +G G I + V G ++++ AG +
Sbjct: 169 YDLERIRAASPEDKLVLNGFDEMLLSALALGADGAIGSTYNVNGKRYRKIFEAFNAGDID 228
Query: 183 EAMKLQH 189
A +LQH
Sbjct: 229 TARELQH 235
>gnl|CDD|131366 TIGR02313, HpaI-NOT-DapA, 2,4-dihydroxyhept-2-ene-1,7-dioic acid
aldolase. This model represents a subset of the DapA
(dihydrodipicolinate synthase) family which has
apparently evolved a separate function. The product of
DapA, dihydrodipicolinate, results from the
non-enzymatic cyclization and dehydration of
6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is
different from the substrate of this reaction only in
the presence of the amino group. In the absence of this
amino group, and running the reaction in the opposite
direction, the reaction corresponds to the HpaI aldolase
component of the 4-hydroxyphenylacetic acid catabolism
pathway (see TIGR02311). At present, this variant of
DapA is found only in Oceanobacillus iheyensis HTE831
and Thermus thermophilus HB27. In both of these cases,
one or more other DapA genes can be found and the one
identified by this model is part of an operon for
4-hydroxyphenylacetic acid catabolism.
Length = 294
Score = 80.0 bits (197), Expect = 3e-18
Identities = 62/204 (30%), Positives = 95/204 (46%), Gaps = 26/204 (12%)
Query: 4 SFKSTEEEKLKIISTLRQETKKT-IIAGTYCESTRATIDLTQKAAKAGANAALILCPYYF 62
+ EE K I + + Q + GT + T++LT+ A +AGA+AA+++ PYY
Sbjct: 48 GSLTLEERKQAIENAIDQIAGRIPFAPGTGALNHDETLELTKFAEEAGADAAMVIVPYY- 106
Query: 63 QKKMTEDLIYEHFISVADNSP-IPVIIYNNTFVTNIDISVDTLVKLAHHENIRGVKDTDN 121
K ++ +Y+HF VAD P P+IIYN +I+ T+ +L KD N
Sbjct: 107 -NKPNQEALYDHFAEVADAVPDFPIIIYNIPGRAAQEIAPKTMARL--------RKDCPN 157
Query: 122 IKLANMANQTKDL------------NFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPI 169
I A +N KD +F +F G L L +G AG I A + V +
Sbjct: 158 IVGAKESN--KDFEHLNHLFLEAGRDFLLFCGIELLCLPMLAIGAAGSIAATANVEPKEV 215
Query: 170 CELYDLAKAGKWEEAMKLQHRLVK 193
EL + A+AG + A L L++
Sbjct: 216 AELCEAAEAGDIKGAQDLHFELLE 239
>gnl|CDD|179749 PRK04147, PRK04147, N-acetylneuraminate lyase; Provisional.
Length = 293
Score = 78.9 bits (195), Expect = 7e-18
Identities = 52/187 (27%), Positives = 95/187 (50%), Gaps = 9/187 (4%)
Query: 7 STEEEKLKIISTLRQETKK--TIIAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQK 64
STEE+K +++ + +E K +IA +T +L + A + G +A + P+Y+
Sbjct: 55 STEEKK-QVLEIVAEEAKGKVKLIAQVGSVNTAEAQELAKYATELGYDAISAVTPFYY-- 111
Query: 65 KMTEDLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKLAHHENIRGVKDT--DNI 122
+ + I +++ + D++ P+I+YN +T +++S+D +L + GVK T D
Sbjct: 112 PFSFEEICDYYREIIDSADNPMIVYNIPALTGVNLSLDQFNELFTLPKVIGVKQTAGDLY 171
Query: 123 KLANMANQTKDLNFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPICELYDLAKAGKWE 182
+L + D ++ G SGLL G G I + V G ++++ AKAG +
Sbjct: 172 QLERIRKAFPDK--LIYNGFDEMFASGLLAGADGAIGSTYNVNGWRARQIFEAAKAGDIQ 229
Query: 183 EAMKLQH 189
EA +LQH
Sbjct: 230 EAQELQH 236
>gnl|CDD|178038 PLN02417, PLN02417, dihydrodipicolinate synthase.
Length = 280
Score = 70.1 bits (172), Expect = 1e-14
Identities = 37/92 (40%), Positives = 48/92 (52%), Gaps = 4/92 (4%)
Query: 27 IIAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQKKMTEDLIYEHFISVADNSPIPV 86
+I T STR I T++ G +AAL + PYY K E LI +HF +V D P
Sbjct: 73 VIGNTGSNSTREAIHATEQGFAVGMHAALHINPYY-GKTSQEGLI-KHFETVLDMGP--T 128
Query: 87 IIYNNTFVTNIDISVDTLVKLAHHENIRGVKD 118
IIYN T DI + + K+A H N GVK+
Sbjct: 129 IIYNVPGRTGQDIPPEVIFKIAQHPNFAGVKE 160
>gnl|CDD|188072 TIGR00683, nanA, N-acetylneuraminate lyase. N-acetylneuraminate
lyase is also known as N-acetylneuraminic acid aldolase,
sialic acid aldolase, or sialate lyase. It is an
intracellular enzyme. The structure of this
homotetrameric enzyme related to dihydrodipicolinate
synthase is known. In Clostridium tertium, the enzyme
appears to be in an operon with a secreted sialidase
that releases sialic acid from host
sialoglycoconjugates. In several E. coli strains,
however, this enzyme is responsible for
N-acetyl-D-neuraminic acid synthesis for capsule
production by condensing N-acetyl-D-mannosamine and
pyruvate [Cell envelope, Biosynthesis and degradation of
surface polysaccharides and lipopolysaccharides, Central
intermediary metabolism, Amino sugars].
Length = 290
Score = 68.1 bits (166), Expect = 6e-14
Identities = 45/191 (23%), Positives = 93/191 (48%), Gaps = 9/191 (4%)
Query: 4 SFKSTEEEKLKIISTLRQETKKTI--IAGTYCESTRATIDLTQKAAKAGANAALILCPYY 61
+F + EEK +I + E K I IA + + ++L + A + G + + P+Y
Sbjct: 48 NFMLSTEEKKEIFRIAKDEAKDQIALIAQVGSVNLKEAVELGKYATELGYDCLSAVTPFY 107
Query: 62 FQKKMTEDLIYEHFISVADNS-PIPVIIYNNTFVTNIDISVDTLVKLAHHENIRGVKDT- 119
++ E I ++ ++ + + +I+Y+ F+T +++ ++ +L + + GVK T
Sbjct: 108 YKFSFPE--IKHYYDTIIAETGGLNMIVYSIPFLTGVNMGIEQFGELYKNPKVLGVKFTA 165
Query: 120 -DNIKLANMANQTKDLNFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPICELYDLAKA 178
D L + + ++AG +L +G G I + V G ++++L KA
Sbjct: 166 GDFYLLERLKKAYPNH--LIWAGFDEMMLPAASLGVDGAIGSTFNVNGVRARQIFELTKA 223
Query: 179 GKWEEAMKLQH 189
GK +EA+++QH
Sbjct: 224 GKLQEALEIQH 234
>gnl|CDD|188640 cd00953, KDG_aldolase, KDG (2-keto-3-deoxygluconate) aldolases
found in archaea. KDG (2-keto-3-deoxygluconate)
aldolases found in archaea. This subfamily of enzymes is
adapted for high thermostability and shows specificity
for non-phosphorylated substrates. The enzyme catalyses
the reversible aldol cleavage of 2-keto-3-dexoygluconate
to pyruvate and glyceraldehyde, the third step of a
modified non-phosphorylated Entner-Doudoroff pathway of
glucose oxidation. KDG aldolase shows no significant
sequence similarity to microbial
2-keto-3-deoxyphosphogluconate (KDPG) aldolases, and the
enzyme shows no activity with glyceraldehyde 3-phosphate
as substrate. The enzyme is a tetramer and a member of
the DHDPS family of Schiff-base-dependent class I
aldolases.
Length = 279
Score = 64.7 bits (158), Expect = 1e-12
Identities = 54/184 (29%), Positives = 84/184 (45%), Gaps = 16/184 (8%)
Query: 10 EEKLKIISTLRQETKKTI--IAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQKKMT 67
+EKL+++ T K I + E + I+L + A G A L PYYF +
Sbjct: 52 QEKLELLKAYSDITDKVIFQVGSLNLEES---IELARAAKSFGIYAIASLPPYYF-PGIP 107
Query: 68 EDLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKL-AHHENIRGVKDTDNIKLAN 126
E+ + ++F ++ SP P IYN T DI+ ++ +I GVKDT N +++
Sbjct: 108 EEWLIKYFTDIS--SPYPTFIYNYPKATGYDINARMAKEIKKAGGDIIGVKDT-NEDISH 164
Query: 127 MANQTKDL--NFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPICELYDLAKAGKWEEA 184
M K L +F V++G + S L G G + A S L ++ D E+A
Sbjct: 165 MLE-YKRLVPDFKVYSGPDSLIFSALRSGLDGSVAAASNYLPEVFVKIKDHVAI---EDA 220
Query: 185 MKLQ 188
KLQ
Sbjct: 221 FKLQ 224
>gnl|CDD|188638 cd00951, KDGDH, 5-dehydro-4-deoxyglucarate dehydratase, also called
5-keto-4-deoxy-glucarate dehydratase (KDGDH).
5-dehydro-4-deoxyglucarate dehydratase, also called
5-keto-4-deoxy-glucarate dehydratase (KDGDH), which is
member of dihydrodipicolinate synthase (DHDPS) family
that comprises several pyruvate-dependent class I
aldolases. The enzyme is involved in glucarate
metabolism, and its mechanism presumbly involves a
Schiff-base intermediate similar to members of DHDPS
family. While in the case of Pseudomonas sp.
5-dehydro-4-deoxy-D-glucarate is degraded by KDGDH to
2,5-dioxopentanoate, in certain species of
Enterobacteriaceae it is degraded instead to pyruvate
and glycerate.
Length = 289
Score = 54.6 bits (132), Expect = 3e-09
Identities = 38/121 (31%), Positives = 61/121 (50%), Gaps = 17/121 (14%)
Query: 5 FKSTEEEKLKIISTLRQET--KKTIIAGT-YCESTRATIDLTQKAAKAGANAALILCPYY 61
F T +E +++ +ET + ++AG Y T I Q A KAGA+ L+L PY
Sbjct: 48 FSLTPDEYAQVVRAAVEETAGRVPVLAGAGY--GTATAIAYAQAAEKAGADGILLLPPY- 104
Query: 62 FQKKMTE---DLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKLAHH-ENIRGVK 117
+TE + +Y H +V ++ + VI+YN N ++ D+L +LA N+ G K
Sbjct: 105 ----LTEAPQEGLYAHVEAVCKSTDLGVIVYNR---ANAVLTADSLARLAERCPNLVGFK 157
Query: 118 D 118
D
Sbjct: 158 D 158
>gnl|CDD|235141 PRK03620, PRK03620, 5-dehydro-4-deoxyglucarate dehydratase;
Provisional.
Length = 303
Score = 52.9 bits (128), Expect = 1e-08
Identities = 35/118 (29%), Positives = 57/118 (48%), Gaps = 17/118 (14%)
Query: 8 TEEEKLKIISTLRQETKKT--IIAGT-YCESTRATIDLTQKAAKAGANAALILCPYYFQK 64
T +E +++ + T +IAG T I+ Q A +AGA+ L+L PY
Sbjct: 58 TPDEYSQVVRAAVETTAGRVPVIAGAGG--GTAQAIEYAQAAERAGADGILLLPPY---- 111
Query: 65 KMTE---DLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKLAH-HENIRGVKD 118
+TE + + H +V ++ + VI+YN N ++ DTL +LA N+ G KD
Sbjct: 112 -LTEAPQEGLAAHVEAVCKSTDLGVIVYNR---DNAVLTADTLARLAERCPNLVGFKD 165
>gnl|CDD|188639 cd00952, CHBPH_aldolase, Trans-o-hydroxybenzylidenepyruvate
hydratase-aldolase (HBPHA) and
trans-2'-carboxybenzalpyruvate hydratase-aldolase
(CBPHA). Trans-o-hydroxybenzylidenepyruvate
hydratase-aldolase (HBPHA) and
trans-2'-carboxybenzalpyruvate hydratase-aldolase
(CBPHA). HBPHA catalyzes HBP to salicyaldehyde and
pyruvate. This reaction is part of the degradative
pathways for naphthalene and naphthalenesulfonates by
bacteria. CBPHA is homologous to HBPHA and catalyzes the
cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate
during the degradation of phenanthrene. They are member
of the DHDPS family of Schiff-base-dependent class I
aldolases.
Length = 309
Score = 46.3 bits (110), Expect = 3e-06
Identities = 43/202 (21%), Positives = 69/202 (34%), Gaps = 19/202 (9%)
Query: 8 TEEEKLKIISTLRQETKKTI--IAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQKK 65
T EEK ++T+ + + G +TR TI T+ GA+ ++ P +
Sbjct: 59 TWEEKQAFVATVVETVAGRVPVFVGATTLNTRDTIARTRALLDLGADGTMLGRPMWL--P 116
Query: 66 MTEDLIYEHFISVADNSP-IPVIIYNNTFVTNIDISVDTLVKLAHHENIRGVKDTDNI-K 123
+ D + + VA+ P + + IY N D +LA + K +I
Sbjct: 117 LDVDTAVQFYRDVAEAVPEMAIAIYANPEAFKFDFPRAAWAELAQIPQVVAAKYLGDIGA 176
Query: 124 LANMANQTKD------LNFSVFAGSAGYLLSGLLVGCAGGINALSAVLG-GPICELYDLA 176
L + K L +A A L + A G P+ L D
Sbjct: 177 LLSDLAAVKGRMRLLPLEDDYYA--AARLFPEEVTAFWSS----GAACGPAPVTALRDAV 230
Query: 177 KAGKWEEAMKLQHRLVKPDVTL 198
G W +A L R+ L
Sbjct: 231 ATGDWTDARALTDRMRWAAEPL 252
>gnl|CDD|132293 TIGR03249, KdgD, 5-dehydro-4-deoxyglucarate dehydratase.
5-dehydro-4-deoxyglucarate dehydratase not only
catalyzes the dehydration of the substrate (diol to
ketone + water), but causes the decarboxylation of the
intermediate product to yield 2-oxoglutarate
semialdehyde (2,5-dioxopentanoate). The gene for the
enzyme is usually observed in the vicinity of
transporters and dehydratases handling D-galactarate and
D-gluconate as well as aldehyde dehydrogenases which
convert the product to alpha-ketoglutarate.
Length = 296
Score = 41.6 bits (98), Expect = 1e-04
Identities = 32/117 (27%), Positives = 56/117 (47%), Gaps = 9/117 (7%)
Query: 5 FKSTEEEKLKIISTLRQETKKT--IIAGTYCESTRATIDLTQKAAKAGANAALILCPYYF 62
F T E +++ K + G +T I++ + A KAGA+ L+L PY
Sbjct: 53 FSLTPAEYEQVVEIAVSTAKGKVPVYTGV-GGNTSDAIEIARLAEKAGADGYLLLPPYLI 111
Query: 63 QKKMTEDLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKLAHH-ENIRGVKD 118
+ ++ +Y H +V +++ + VI+Y N ++ DTL +LA N+ G KD
Sbjct: 112 NGE--QEGLYAHVEAVCESTDLGVIVYQR---DNAVLNADTLERLADRCPNLVGFKD 163
>gnl|CDD|114268 pfam05537, DUF759, Borrelia burgdorferi protein of unknown function
(DUF759). This family consists of several
uncharacterized proteins from the Lyme disease
spirochete Borrelia burgdorferi.
Length = 439
Score = 31.2 bits (70), Expect = 0.29
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 118 DTDNIKLANMANQTKDLNFSVFAGSAGYLLSGLLVGCAGGINALSAVLGGPICELYDLAK 177
D ++ + N N + FA A + SG + + A++ +LGG E +DL K
Sbjct: 226 DIRDLDMLNDKEGKNLKNATEFA--AMFKSSGAMSDNEDAVKAVNKILGGDGSEAFDLLK 283
Query: 178 -----AGKWEEAMKLQHRLV 192
K+ EA K+ L+
Sbjct: 284 KIDGFGDKYIEAAKMALELL 303
>gnl|CDD|215561 PLN03077, PLN03077, Protein ECB2; Provisional.
Length = 857
Score = 29.8 bits (67), Expect = 1.0
Identities = 13/25 (52%), Positives = 18/25 (72%), Gaps = 4/25 (16%)
Query: 176 AKAGKWEEAMKLQHRL----VKPDV 196
AKAG ++EA+ L HR+ V+PDV
Sbjct: 163 AKAGYFDEALCLYHRMLWAGVRPDV 187
>gnl|CDD|216924 pfam02191, OLF, Olfactomedin-like domain.
Length = 250
Score = 29.1 bits (66), Expect = 1.2
Identities = 14/50 (28%), Positives = 23/50 (46%), Gaps = 8/50 (16%)
Query: 61 YFQKKMTEDLIYEHFIS--VADNSPIPVIIYNNTFV------TNIDISVD 102
Y+ + + +I + V +P YNNTF T+ID++VD
Sbjct: 82 YYNRYNSRTIIKYDLTTRTVVATRVLPNAGYNNTFPYSWGGKTDIDLAVD 131
>gnl|CDD|172015 PRK13375, pimE, mannosyltransferase; Provisional.
Length = 409
Score = 28.2 bits (63), Expect = 2.9
Identities = 17/38 (44%), Positives = 20/38 (52%), Gaps = 6/38 (15%)
Query: 147 LSGLLVGCAGGINALSAVLGGPICELYDLAKAGKWEEA 184
LSGLLVG A G+ A+ G LY L A +W A
Sbjct: 174 LSGLLVGLAAGVKLTPAITG-----LYFLG-ARRWAAA 205
>gnl|CDD|193513 cd03893, M20_Dipept_like, M20 Dipeptidases. Peptidase M20 family,
dipeptidase-like subfamily. This group contains a large
variety of enzymes, including cytosolic nonspecific
dipeptidase (CNDP), Xaa-methyl-His dipeptidase
(anserinase), canosinase, DUG2 type proteins, as well as
many proteins inferred by homology to be dipeptidases.
These enzymes have been shown to act on a wide range of
dipeptides, but not larger peptides. For example,
anserinase mainly catalyzes the hydrolysis of
N-alpha-acetylhistidine while carnosinase degrades
beta-alanyl-L-histidine. Substrates of CNDP are varied
and not limited to Xaa-His dipeptides. DUG2 proteins
contain a metallopeptidase domain and a large N-terminal
WD40 repeat region, and are involved in the alternative
pathway of glutathione degradation.
Length = 428
Score = 27.9 bits (63), Expect = 3.3
Identities = 8/40 (20%), Positives = 19/40 (47%)
Query: 14 KIISTLRQETKKTIIAGTYCESTRATIDLTQKAAKAGANA 53
++++TL E + + G Y + +D ++ +A A
Sbjct: 215 RLLATLHDEDGRVAVPGLYSDLPWEGVDYPEEEFRAEAGV 254
>gnl|CDD|131789 TIGR02742, TrbC_Ftype, type-F conjugative transfer system pilin
assembly protein TrbC. This protein is an essential
component of the F-type conjugative pilus assembly
system for the transfer of plasmid DNA. The N-terminal
portion of these proteins are heterogeneous and are not
covered by this model.
Length = 130
Score = 27.0 bits (60), Expect = 3.8
Identities = 18/107 (16%), Positives = 39/107 (36%), Gaps = 17/107 (15%)
Query: 7 STEEEKLKIISTLRQETKKTIIAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQK-- 64
+ E L +R G +AT Q K G + + + P +F++
Sbjct: 18 LDQAEALGAPLVIR---------GLLDNGFKATATRIQSLIKDGGKSGVQIDPQWFKQFD 68
Query: 65 --KMTEDLIYEHFISVADNSPIPVIIYNNTFVTNIDISVD-TLVKLA 108
+ ++ + ++ P P Y+ + ++S+ L K+A
Sbjct: 69 ITAVPAFVVVKDGLACLPEQPCPESDYDVVYG---NVSLKGALEKMA 112
>gnl|CDD|181026 PRK07550, PRK07550, hypothetical protein; Provisional.
Length = 386
Score = 28.0 bits (63), Expect = 3.9
Identities = 17/67 (25%), Positives = 21/67 (31%), Gaps = 20/67 (29%)
Query: 19 LRQETKKTIIAGTYCESTRATIDLTQKAAKAGANAALI-----LC----------PYYFQ 63
LR+ A Y A I Q +G N A L P+YF
Sbjct: 72 LREA-----YAAHYSRLYGAAISPEQVHITSGCNQAFWAAMVTLAGAGDEVILPLPWYFN 126
Query: 64 KKMTEDL 70
KM D+
Sbjct: 127 HKMWLDM 133
>gnl|CDD|129986 TIGR00908, 2A0305, ethanolamine permease. The three genes used as
the seed for this model (from Burkholderia pseudomallei,
Pseudomonas aeruginosa and Clostridium acetobutylicum
are all adjacent to genes for the catabolism of
ethanolamine. Most if not all of the hits to this model
have a similar arrangement of genes. This group is a
member of the Amino Acid-Polyamine-Organocation (APC)
Superfamily [Transport and binding proteins, Amino
acids, peptides and amines].
Length = 442
Score = 27.5 bits (61), Expect = 4.7
Identities = 23/96 (23%), Positives = 42/96 (43%)
Query: 99 ISVDTLVKLAHHENIRGVKDTDNIKLANMANQTKDLNFSVFAGSAGYLLSGLLVGCAGGI 158
++ TL+ LA + G D +L N + S++ GS LVG G I
Sbjct: 230 GAILTLLALAAGILVVGPGAADAKELMGSNNPLPEALESIYGGSTWMSQFVNLVGLFGLI 289
Query: 159 NALSAVLGGPICELYDLAKAGKWEEAMKLQHRLVKP 194
+ ++ G +++ L++AG E++ +R P
Sbjct: 290 ASFHGIIYGYSRQIFALSRAGYLPESLSKVNRKKAP 325
>gnl|CDD|233421 TIGR01453, grpIintron_endo, group I intron endonuclease. This
model represents one subfamily of endonucleases
containing the endo/excinuclease amino terminal domain,
pfam01541 at its amino end. A distinct subfamily
includes excinuclease abc subunit c (uvrC). Members of
pfam01541 are often termed GIY-YIG endonucleases after
conserved motifs near the amino end. This subfamily in
This model is found in open reading frames of group I
introns in both phage and mitochondria. The closely
related endonucleases of phage T4: segA, segB, segC,
segD and segE, score below the trusted cutoff for the
family.
Length = 214
Score = 27.0 bits (60), Expect = 6.1
Identities = 23/109 (21%), Positives = 40/109 (36%), Gaps = 14/109 (12%)
Query: 5 FKSTEEEKLKIISTLRQETKKTIIAGTYCESTRATIDLTQKAAKAGANAALILCPYYFQK 64
+K +EE K K+ + T+ E T+A I + +F K
Sbjct: 97 YKHSEETKAKMSKLFSGKKNNPWYGKTHSEETKAKISKNKLGENNP----------FFGK 146
Query: 65 KMTEDLIYEHFISVADNSPIPVIIYNNTFVTNIDISVDTLVKLAHHENI 113
K +E+ IS + V +Y+ + I D++ + A H I
Sbjct: 147 KHSEETK--KKISEKEKGAKKVNVYDK--NNGLLIIFDSIAEAARHLGI 191
>gnl|CDD|181295 PRK08213, PRK08213, gluconate 5-dehydrogenase; Provisional.
Length = 259
Score = 26.8 bits (60), Expect = 7.9
Identities = 16/58 (27%), Positives = 25/58 (43%), Gaps = 9/58 (15%)
Query: 32 YCESTRATIDLTQK-AAKAGA-----NAALILCPYYFQKKMTEDLIYEHFISVADNSP 83
Y S A I+ T+ AA+ G NA + P +F KMT + + ++P
Sbjct: 166 YNTSKGAVINFTRALAAEWGPHGIRVNA---IAPGFFPTKMTRGTLERLGEDLLAHTP 220
>gnl|CDD|234292 TIGR03644, marine_trans_1, probable ammonium transporter, marine
subtype. Members of this protein family are well
conserved subclass of putative ammonimum transporters,
belonging to the much broader set of
ammonium/methylammonium transporter described by
TIGR00836. Species with this transporter tend to be
marine bacteria. Partial phylogenetic profiling (PPP)
picks a member of this protein family as the single
best-scoring protein vs. a reference profile for the
marine environment Genome Property for a large number of
different query genomes. This finding by PPP suggests
that this transporter family represents an important
adaptation to the marine environment.
Length = 404
Score = 26.9 bits (60), Expect = 8.5
Identities = 11/22 (50%), Positives = 12/22 (54%)
Query: 43 TQKAAKAGANAALILCPYYFQK 64
T AA GA AAL+L F K
Sbjct: 246 TNAAAAGGAIAALLLTKLLFGK 267
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.317 0.133 0.378
Gapped
Lambda K H
0.267 0.0771 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,677,988
Number of extensions: 880484
Number of successful extensions: 1181
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1148
Number of HSP's successfully gapped: 50
Length of query: 198
Length of database: 10,937,602
Length adjustment: 92
Effective length of query: 106
Effective length of database: 6,857,034
Effective search space: 726845604
Effective search space used: 726845604
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.3 bits)