RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15360
(109 letters)
>gnl|CDD|238368 cd00717, URO-D, Uroporphyrinogen decarboxylase (URO-D) is a dimeric
cytosolic enzyme that decarboxylates the four acetate
side chains of uroporphyrinogen III (uro-III) to create
coproporphyrinogen III, without requiring any prosthetic
groups or cofactors. This reaction is located at the
branching point of the tetrapyrrole biosynthetic
pathway, leading to the biosynthesis of heme,
chlorophyll or bacteriochlorophyll. URO-D deficiency is
responsible for the human genetic diseases familial
porphyria cutanea tarda (fPCT) and hepatoerythropoietic
porphyria (HEP).
Length = 335
Score = 148 bits (375), Expect = 5e-45
Identities = 49/106 (46%), Positives = 66/106 (62%), Gaps = 2/106 (1%)
Query: 3 NDVPMTIFAKGAHYALEELNQTKYDIVGIDWTIEPSLARSII-KNKTLQGNLDPCALYAS 61
VP+ +FAKGA LE+L Q D+VG+DW ++ AR + LQGNLDP LYA
Sbjct: 229 PGVPVILFAKGAGGLLEDLAQLGADVVGLDWRVDLDEARKRLGPKVALQGNLDPALLYAP 288
Query: 62 KEKLRKIGTQMAKEFG-KSRYIANLGHGIYPDMDPEHVQVLIDAIH 106
KE + K ++ K FG +I NLGHGI PD PE+V+ L++A+H
Sbjct: 289 KEAIEKEVKRILKAFGGAPGHIFNLGHGILPDTPPENVKALVEAVH 334
>gnl|CDD|233423 TIGR01464, hemE, uroporphyrinogen decarboxylase. This model
represents uroporphyrinogen decarboxylase (HemE), which
converts uroporphyrinogen III to coproporphyrinogen III.
This step takes the pathway toward protoporphyrin IX, a
common precursor of both heme and chlorophyll, rather
than toward precorrin 2 and its products [Biosynthesis
of cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 338
Score = 135 bits (343), Expect = 3e-40
Identities = 49/106 (46%), Positives = 70/106 (66%), Gaps = 2/106 (1%)
Query: 3 NDVPMTIFAKGAHYALEELNQTKYDIVGIDWTIEPSLARSII-KNKTLQGNLDPCALYAS 61
VP+ +FAKGA + LEEL +T D+VG+DW+++ AR + +QGNLDP LYA
Sbjct: 232 PGVPVILFAKGAGHLLEELAETGADVVGLDWSVDLKEARKRVGDGVAIQGNLDPAVLYAP 291
Query: 62 KEKLRKIGTQMAKEF-GKSRYIANLGHGIYPDMDPEHVQVLIDAIH 106
+E L + ++ + F GKS YI NLGHGI PD PE+V+ L++ +H
Sbjct: 292 EEALEEKVERILEAFGGKSGYIFNLGHGILPDTPPENVKALVEYVH 337
>gnl|CDD|234644 PRK00115, hemE, uroporphyrinogen decarboxylase; Validated.
Length = 346
Score = 125 bits (316), Expect = 3e-36
Identities = 44/106 (41%), Positives = 65/106 (61%), Gaps = 1/106 (0%)
Query: 3 NDVPMTIFAKGAHYALEELNQTKYDIVGIDWTIEPSLARSII-KNKTLQGNLDPCALYAS 61
DVP+ +F KGA LE + +T D+VG+DWT++ + AR + K LQGNLDP L A
Sbjct: 238 PDVPVILFGKGAGELLEAMAETGADVVGLDWTVDLAEARRRVGDKKALQGNLDPAVLLAP 297
Query: 62 KEKLRKIGTQMAKEFGKSRYIANLGHGIYPDMDPEHVQVLIDAIHD 107
E + + + G +I NLGHGI P+ PE+V+ L++A+H+
Sbjct: 298 PEAIEEEVRAILDGGGGPGHIFNLGHGILPETPPENVKALVEAVHE 343
>gnl|CDD|216366 pfam01208, URO-D, Uroporphyrinogen decarboxylase (URO-D).
Length = 338
Score = 114 bits (289), Expect = 2e-32
Identities = 36/104 (34%), Positives = 62/104 (59%), Gaps = 2/104 (1%)
Query: 6 PMTIFAKGAH-YALEELNQTKYDIVGIDWTIEPSLARSIIKNKTLQGNLDPCALYASKEK 64
P+ + G LE++ +T D++ +DWT++ + A+ I+ + LQGNLDP L + E+
Sbjct: 234 PVILHICGNGTPILEDMAETGADVISLDWTVDLAEAKRIVGDVALQGNLDPALLLGTPEE 293
Query: 65 LRKIGTQM-AKEFGKSRYIANLGHGIYPDMDPEHVQVLIDAIHD 107
+ ++ G +I NLGHGI PD PE+V+ L++A+H+
Sbjct: 294 IEAEVKEILEAGDGGPGHIFNLGHGIPPDTPPENVKALVEAVHE 337
>gnl|CDD|215237 PLN02433, PLN02433, uroporphyrinogen decarboxylase.
Length = 345
Score = 105 bits (264), Expect = 1e-28
Identities = 37/105 (35%), Positives = 59/105 (56%), Gaps = 1/105 (0%)
Query: 4 DVPMTIFAKGAHYALEELNQTKYDIVGIDWTIEPSLARSIIKNK-TLQGNLDPCALYASK 62
DVP+ ++A G+ LE L T D++G+DWT++ + AR + + +QGN+DP L+ SK
Sbjct: 232 DVPLILYANGSGGLLERLAGTGVDVIGLDWTVDMADARRRLGSDVAVQGNVDPAVLFGSK 291
Query: 63 EKLRKIGTQMAKEFGKSRYIANLGHGIYPDMDPEHVQVLIDAIHD 107
E + K + K+ G +I NLGHG+ E+V D +
Sbjct: 292 EAIEKEVRDVVKKAGPQGHILNLGHGVLVGTPEENVAHFFDVARE 336
>gnl|CDD|223484 COG0407, HemE, Uroporphyrinogen-III decarboxylase [Coenzyme
metabolism].
Length = 352
Score = 104 bits (261), Expect = 3e-28
Identities = 43/107 (40%), Positives = 70/107 (65%), Gaps = 2/107 (1%)
Query: 2 NNDVPMTIFAKGAHYALEELNQTKYDIVGIDWTIEPSLARSIIKNK-TLQGNLDPCALYA 60
VP+ F KGA + LE++ +T +D++G+DW ++ A+ + +K LQGNLDP LYA
Sbjct: 240 KGGVPVIHFCKGAGHLLEDMAKTGFDVLGVDWRVDLKEAKKRLGDKVALQGNLDPALLYA 299
Query: 61 SKEKLRKIGTQMAKEFG-KSRYIANLGHGIYPDMDPEHVQVLIDAIH 106
E +++ ++ ++ G S YI NLGHGI P+ PE+V+ L++A+H
Sbjct: 300 PPEAIKEEVKRILEDGGDGSGYIFNLGHGILPETPPENVKALVEAVH 346
>gnl|CDD|238261 cd00465, URO-D_CIMS_like, The URO-D_CIMS_like protein superfamily
includes bacterial and eukaryotic uroporphyrinogen
decarboxylases (URO-D), coenzyme M methyltransferases
and other putative bacterial methyltransferases, as well
as cobalamine (B12) independent methionine synthases.
Despite their sequence similarities, members of this
family have clearly different functions.
Uroporphyrinogen decarboxylase (URO-D) decarboxylates
the four acetate side chains of uroporphyrinogen III
(uro-III) to create coproporphyrinogen III, an important
branching point of the tetrapyrrole biosynthetic
pathway. The methyltransferases represented here are
important for ability of methanogenic organisms to use
other compounds than carbon dioxide for reduction to
methane, and methionine synthases transfer a methyl
group from a folate cofactor to L-homocysteine in a
reaction requiring zinc.
Length = 306
Score = 76.8 bits (189), Expect = 4e-18
Identities = 33/110 (30%), Positives = 53/110 (48%), Gaps = 6/110 (5%)
Query: 2 NNDVPMTIFAKG-AHYALEELNQTKYDIVGIDWTI-EPSLARSIIKNK-TLQGNLDPCAL 58
+VP+ + A LEE+ Q D++ D T+ EP A + K TL G +DP L
Sbjct: 197 AGEVPIVHHSCYDAADLLEEMIQLGVDVISFDMTVNEPKEAIEKVGEKKTLVGGVDPGYL 256
Query: 59 YASKEKLRKIGTQMAKEFGKSRYIANLGHGIYPDMD--PEHVQVLIDAIH 106
A+ E+ ++ + G YI N G+ PD D PEH++ ++ +
Sbjct: 257 PATDEECIAKVEELVERLGP-HYIINPDCGLGPDSDYKPEHLRAVVQLVD 305
>gnl|CDD|239548 cd03465, URO-D_like, The URO-D _like protein superfamily includes
bacterial and eukaryotic uroporphyrinogen decarboxylases
(URO-D), coenzyme M methyltransferases and other
putative bacterial methyltransferases. Uroporphyrinogen
decarboxylase (URO-D) decarboxylates the four acetate
side chains of uroporphyrinogen III (uro-III) to create
coproporphyrinogen III, an important branching point of
the tetrapyrrole biosynthetic pathway. The
methyltransferases represented here are important for
ability of methanogenic organisms to use other compounds
than carbon dioxide for reduction to methane.
Length = 330
Score = 60.8 bits (148), Expect = 3e-12
Identities = 30/111 (27%), Positives = 54/111 (48%), Gaps = 6/111 (5%)
Query: 3 NDVPMTIFAKGAHYA-LEELNQTKYDIVGIDWTIEPSLARSIIKNK-TLQGNLDPCA-LY 59
P+ G LE + D+ ID T++ + A+ + +K L GNLDP L
Sbjct: 220 LGGPVIHHNCGDTAPILELMADLGADVFSIDVTVDLAEAKKKVGDKACLMGNLDPIDVLL 279
Query: 60 A-SKEKLRKIGTQMAKEFGK--SRYIANLGHGIYPDMDPEHVQVLIDAIHD 107
S E++++ ++ ++ K YI + G I PD E+++ +IDA+ +
Sbjct: 280 NGSPEEIKEEVKELLEKLLKGGGGYILSSGCEIPPDTPIENIKAMIDAVRE 330
>gnl|CDD|237973 PRK15488, PRK15488, thiosulfate reductase PhsA; Provisional.
Length = 759
Score = 31.2 bits (71), Expect = 0.075
Identities = 8/22 (36%), Positives = 14/22 (63%)
Query: 69 GTQMAKEFGKSRYIANLGHGIY 90
G ++ ++ S+YI N GH +Y
Sbjct: 187 GGKLKRDLANSKYIINFGHNLY 208
>gnl|CDD|239156 cd02755, MopB_Thiosulfate-R-like, The MopB_Thiosulfate-R-like CD
contains thiosulfate-, sulfur-, and
polysulfide-reductases, and other related proteins.
Thiosulfate reductase catalyzes the cleavage of
sulfur-sulfur bonds in thiosulfate. Polysulfide
reductase is a membrane-bound enzyme that catalyzes the
reduction of polysulfide using either hydrogen or
formate as the electron donor. Members of the
MopB_Thiosulfate-R-like CD belong to the
molybdopterin_binding (MopB) superfamily of proteins.
Length = 454
Score = 30.7 bits (70), Expect = 0.095
Identities = 10/46 (21%), Positives = 20/46 (43%)
Query: 60 ASKEKLRKIGTQMAKEFGKSRYIANLGHGIYPDMDPEHVQVLIDAI 105
A K + G ++ +F +RYI G + + + L+ A+
Sbjct: 138 AWKLVIDSFGGEVNPDFENARYIILFGRNLAEAIIVVDARRLMKAL 183
>gnl|CDD|239423 cd03307, Mta_CmuA_like, MtaA_CmuA_like family. MtaA/CmuA, also
MtsA, or methyltransferase 2 (MT2) MT2-A and MT2-M
isozymes, are methylcobamide:Coenzyme M
methyltransferases, which play a role in metabolic
pathways of methane formation from various substrates,
such as methylated amines and methanol. Coenzyme M,
2-mercaptoethylsulfonate or CoM, is methylated during
methanogenesis in a reaction catalyzed by three
proteins. A methyltransferase methylates the corrinoid
cofactor, which is bound to a second polypeptide, a
corrinoid protein. The methylated corrinoid protein then
serves as a substrate for MT2-A and related enzymes,
which methylate CoM.
Length = 326
Score = 29.6 bits (67), Expect = 0.25
Identities = 11/39 (28%), Positives = 21/39 (53%), Gaps = 1/39 (2%)
Query: 18 LEELNQTKYDIVGIDWTIEPSLARSIIKNKT-LQGNLDP 55
LE + Q +D + +D ++ A+ I+ + L GN+ P
Sbjct: 237 LEYIAQCGFDGISVDEKVDVKTAKEIVGGRAALIGNVSP 275
>gnl|CDD|163057 TIGR02881, spore_V_K, stage V sporulation protein K. Members of
this protein family are the stage V sporulation protein
K (SpoVK), a close homolog of the Rubisco expression
protein CbbX (TIGR02880) and a members of the ATPase
family associated with various cellular activities
(pfam00004). Members are strictly limited to bacterial
endospore-forming species, but are not universal in this
group and are missing from the Clostridium group
[Cellular processes, Sporulation and germination].
Length = 261
Score = 28.1 bits (63), Expect = 0.79
Identities = 15/56 (26%), Positives = 30/56 (53%), Gaps = 4/56 (7%)
Query: 32 DWTIEP--SLARSIIKNKTLQGNLDPCALYASKEKLRKIGTQMAKEFGKSRYIANL 85
D+T+E +A ++K + + L A + +E L K+ ++EF +RY+ N+
Sbjct: 177 DYTVEELMEIAERMVKEREYK--LTEEAKWKLREHLYKVDQLSSREFSNARYVRNI 230
>gnl|CDD|234315 TIGR03695, menH_SHCHC,
2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate
synthase. This protein catalyzes the formation of
SHCHC, or (1 R,6
R)-2-succinyl-6-hydroxy-2,
4-cyclohexadiene-1-carboxylate, by elmination of
pyruvate from
2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1-
carboxylate (SEPHCHC). Note that SHCHC synthase activity
previously was attributed to MenD, which in fact is
SEPHCHC synthase [Biosynthesis of cofactors, prosthetic
groups, and carriers, Menaquinone and ubiquinone].
Length = 252
Score = 27.9 bits (63), Expect = 0.95
Identities = 11/30 (36%), Positives = 14/30 (46%), Gaps = 2/30 (6%)
Query: 63 EKLRKIGTQMAKEFGKSRY--IANLGHGIY 90
EK +I +M K IAN GH I+
Sbjct: 207 EKFVQIAKEMQKLIPNLTLVIIANAGHNIH 236
>gnl|CDD|218819 pfam05942, PaREP1, Archaeal PaREP1/PaREP8 family. This family
consists of several archaeal PaREP1 and PaREP8 proteins
the function of this family is unknown.
Length = 114
Score = 26.8 bits (60), Expect = 1.8
Identities = 12/69 (17%), Positives = 23/69 (33%), Gaps = 13/69 (18%)
Query: 52 NLDPCALYASKEKLRKIGT------QMAKEFGK--SRY--IANLGH---GIYPDMDPEHV 98
N A A + ++ +E G+ +A H P++D V
Sbjct: 44 NRLKLAEKARGKGRWSHRLLMKAVAKLLEEGGEEVVDLWSLALDLHVYQFYDPELDLSDV 103
Query: 99 QVLIDAIHD 107
+ +A+ D
Sbjct: 104 EDREEAVKD 112
>gnl|CDD|199208 cd08964, L-asparaginase_II, Type II (periplasmic) bacterial
L-asparaginase. Asparaginases (amidohydrolases, E.C.
3.5.1.1) are enzymes that catalyze the hydrolysis of
asparagine to aspartic acid and ammonia. In bacteria,
there are two classes of amidohydrolases. This model
represents type II L-asparaginases, which tend to be
highly specific for asparagine and localized to the
periplasm. They are potent antileukemic agents and have
been used in the treatment of acute lymphoblastic
leukemia (ALL), but not without severe side effects.
Tumor cells appear to have a heightened dependence on
exogenous L-aspartate, and depleting their surroundings
of L-aspartate may starve cancerous ALL cells. Type II
L-asparaginase acts as a tetramer, which is actually a
dimer of two tightly bound dimers. A conserved threonine
residue is thought to supply the nucleophile
hydroxy-group that attacks the amide bond. Many
bacterial L-asparaginases have both L-asparagine and
L-glutamine hydrolysis activities, to a different
degree, and some of them are annotated as
asparaginase/glutaminase.
Length = 319
Score = 26.3 bits (59), Expect = 3.3
Identities = 8/28 (28%), Positives = 13/28 (46%), Gaps = 3/28 (10%)
Query: 82 IANLGHGIYPDMDPEHVQVLIDAIHDAL 109
++NL DM P L +++AL
Sbjct: 50 VSNLPS---SDMTPADWLALAARVNEAL 74
>gnl|CDD|225106 COG2195, PepD, Di- and tripeptidases [Amino acid transport and
metabolism].
Length = 414
Score = 26.1 bits (58), Expect = 4.3
Identities = 12/57 (21%), Positives = 19/57 (33%)
Query: 53 LDPCALYASKEKLRKIGTQMAKEFGKSRYIANLGHGIYPDMDPEHVQVLIDAIHDAL 109
D A K+ ++ + +MA GK YP + L+D A
Sbjct: 290 FDNLLFRARKDSMKDVVEEMAASLGKLAGAELEVKDSYPGWKIKPDSPLVDLAKKAY 346
>gnl|CDD|132753 cd07068, NR_LBD_ER_like, The ligand binding domain of estrogen
receptor and estrogen receptor-related receptors. The
ligand binding domain of estrogen receptor (ER) and
estrogen receptor-related receptors (ERRs): Estrogen
receptors are a group of receptors which are activated
by the hormone estrogen. Estrogen regulates many
physiological processes including reproduction, bone
integrity, cardiovascular health, and behavior. The main
mechanism of action of the estrogen receptor is as a
transcription factor by binding to the estrogen response
element of target genes upon activation by estrogen and
then recruiting coactivator proteins which are
responsible for the transcription of target genes.
Additionally some ERs may associate with other membrane
proteins and can be rapidly activated by exposure of
cells to estrogen. ERRs are closely related to the
estrogen receptor (ER) family. But, it lacks the ability
to bind estrogen. ERRs can interfere with the classic
ER-mediated estrogen signaling pathway, positively or
negatively. ERRs share target genes, co-regulators and
promoters with the estrogen receptor (ER) family. Like
other members of the nuclear receptor (NR) superfamily
of ligand-activated transcription factors, ER and ERRs
have a central well conserved DNA binding domain (DBD),
a variable N-terminal domain, a non-conserved hinge and
a C-terminal ligand binding domain (LBD).
Length = 221
Score = 25.6 bits (57), Expect = 5.1
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 63 EKLRKIGTQMAKEFGKSRYIANLGHGIYPDMDPEHVQVLIDAIHDAL 109
+ R++G Q +E+ + I + D E VQ L DAI DAL
Sbjct: 118 RRFRELGLQR-EEYVCLKAIILANSDVRHLEDREAVQQLRDAILDAL 163
>gnl|CDD|189007 cd09600, M1_APN_1, Peptidase M1 family containing Aminopeptidase N.
This family contains aminopeptidase N (APN; CD13;
Alanyl aminopeptidase; EC 3.4.11.2), a Type II integral
membrane protease belonging to the M1 gluzincin family.
It includes bacterial-type alanyl aminopeptidases as
well as PfA-M1 aminopeptidase (Plasmodium
falciparum-type). APN consists of a small N-terminal
cytoplasmic domain, a single transmembrane domain and a
large extracellular ectodomain that contains the active
site. It preferentially cleaves neutral amino acids from
the N-terminus of oligopeptides and, in higher
eukaryotes, is present in a variety of human tissues and
cell types (leukocyte, fibroblast, endothelial and
epithelial cells). APN expression is dysregulated in
inflammatory diseases such as chronic pain, rheumatoid
arthritis, multiple sclerosis, systemic sclerosis,
systemic lupus erythematosus,
polymyositis/dermatomyosytis and pulmonary sarcoidosis,
and is enhanced in tumor cells such as melanoma, renal,
prostate, pancreas, colon, gastric and thyroid cancers.
It is predominantly expressed on stem cells and on cells
of the granulocytic and monocytic lineages at distinct
stages of differentiation, thus considered a marker of
differentiation. Thus, APN inhibition may lead to the
development of anti-cancer and anti-inflammatory drugs.
APNs are also present in many pathogenic bacteria and
represent potential drug targets, Some APNs have been
used commercially, such as one from Lactococcus lactis
used in the food industry. APN also serves as a receptor
for coronaviruses, although the virus receptor
interaction site seems to be distinct from the enzymatic
site and aminopeptidase activity is not necessary for
viral infection. APNs have also been extensively studied
as putative Cry toxin receptors. Cry1 proteins are
pore-forming toxins that bind to the midgut epithelial
cell membrane of susceptible insect larvae, causing
extensive damage. Several different toxins, including
Cry1Aa, Cry1Ab, Cry1Ac, Cry1Ba, Cry1Ca and Cry1Fa, have
been shown to bind to APNs; however, a direct role of
APN in cytotoxicity has been yet to be firmly
established.
Length = 861
Score = 26.1 bits (58), Expect = 5.3
Identities = 8/28 (28%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 50 QGNLDPCALYASKEKLRK-IGTQMAKEF 76
+DP A++ ++E L K + T++ E
Sbjct: 621 MEVIDPDAIHEAREALIKQLATELKDEL 648
>gnl|CDD|102374 PRK06434, PRK06434, cystathionine gamma-lyase; Validated.
Length = 384
Score = 26.0 bits (57), Expect = 5.4
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 14/85 (16%)
Query: 24 TKY-----DIV-GIDWTIEPSLARS-IIKNKTLQGNLDPCALYASKEKLRKIGTQMAKEF 76
TKY D+V G+ T S+ + + + KTL N DP Y + L+ +G +M K
Sbjct: 206 TKYISGHSDVVMGVAGTNNKSIFNNLVERRKTLGSNPDPIQAYLALRGLKTLGLRMEKHN 265
Query: 77 GKSRYIA-------NLGHGIYPDMD 94
+A + + YPD +
Sbjct: 266 KNGMELARFLRDSKKISNVYYPDTE 290
>gnl|CDD|214873 smart00870, Asparaginase, Asparaginase, found in various plant,
animal and bacterial cells. Asparaginase catalyses the
deamination of asparagine to yield aspartic acid and an
ammonium ion, resulting in a depletion of free
circulatory asparagine in plasma. The enzyme is
effective in the treatment of human malignant lymphomas,
which have a diminished capacity to produce asparagine
synthetase: in order to survive, such cells absorb
asparagine from blood plasma..- if Asn levels have been
depleted by injection of asparaginase, the lymphoma
cells die.
Length = 323
Score = 25.6 bits (57), Expect = 7.0
Identities = 9/32 (28%), Positives = 15/32 (46%), Gaps = 3/32 (9%)
Query: 78 KSRYIANLGHGIYPDMDPEHVQVLIDAIHDAL 109
+ +AN+ +M PE L I++AL
Sbjct: 45 EVEQVANIDS---SNMTPEDWLKLAKRINEAL 73
>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 = 25.3 bits (56), Expect = 7.4
Identities = 5/18 (27%), Positives = 10/18 (55%)
Query: 88 GIYPDMDPEHVQVLIDAI 105
+YP + E V + +A+
Sbjct: 344 PLYPGLTLEEVDRVAEAV 361
>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 = 25.3 bits (56), Expect = 9.2
Identities = 6/21 (28%), Positives = 14/21 (66%)
Query: 89 IYPDMDPEHVQVLIDAIHDAL 109
++P++ E V +I+A+ + L
Sbjct: 351 LHPNLSEEDVDRVIEALKEVL 371
>gnl|CDD|221331 pfam11940, DUF3458, Domain of unknown function (DUF3458). This
presumed domain is functionally uncharacterized. This
domain is found in bacteria, archaea and eukaryotes.
This domain is typically between 402 to 419 amino acids
in length. This domain is found associated with
pfam01433. This domain has a conserved FSAPV sequence
motif.
Length = 365
Score = 25.2 bits (56), Expect = 9.5
Identities = 8/29 (27%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 49 LQGNLDPCALYASKEKLRK-IGTQMAKEF 76
+DP A++A++E LR + + E
Sbjct: 165 QMKVVDPDAIHAAREFLRAALAEALRDEL 193
>gnl|CDD|99856 cd06102, citrate_synt_like_2, Citrate synthase (CS) catalyzes the
condensation of acetyl coenzyme A (AcCoA) and
oxalacetate (OAA) to form citrate and coenzyme A (CoA),
the first step in the oxidative citric acid cycle (TCA
or Krebs cycle). Peroxisomal CS is involved in the
glyoxylate cycle. This group also includes CS proteins
which functions as a 2-methylcitrate synthase (2MCS).
2MCS catalyzes the condensation of propionyl-CoA (PrCoA)
and OAA to form 2-methylcitrate and CoA during
propionate metabolism. This group contains proteins
which functions exclusively as either a CS or a 2MCS, as
well as those with relaxed specificity which have dual
functions as both a CS and a 2MCS. The overall CS
reaction is thought to proceed through three partial
reactions and involves both closed and open
conformational forms of the enzyme: a) the carbanion or
equivalent is generated from AcCoA by base abstraction
of a proton, b) the nucleophilic attack of this
carbanion on OAA to generate citryl-CoA, and c) the
hydrolysis of citryl-CoA to produce citrate and CoA.
There are two types of CSs: type I CS and type II CSs.
Type I CSs are found in eukarya, gram-positive bacteria,
archaea, and in some gram-negative bacteria and are
homodimers with both subunits participating in the
active site. Type II CSs are unique to gram-negative
bacteria and are homohexamers of identical subunits
(approximated as a trimer of dimers). Some type II CSs
are strongly and specifically inhibited by NADH through
an allosteric mechanism. This subgroup includes both
gram-positive and gram-negative bacteria.
Length = 282
Score = 24.9 bits (55), Expect = 9.6
Identities = 9/28 (32%), Positives = 13/28 (46%), Gaps = 1/28 (3%)
Query: 82 IANLGHGIYPDMDPEHVQVLIDAIHDAL 109
+ GH +YPD DP L+ A+
Sbjct: 180 LPGFGHPLYPDGDPR-AAALLAALRPLG 206
>gnl|CDD|223330 COG0252, AnsB, L-asparaginase/archaeal Glu-tRNAGln amidotransferase
subunit D [Amino acid transport and metabolism /
Translation, ribosomal structure and biogenesis].
Length = 351
Score = 24.9 bits (55), Expect = 9.6
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 91 PDMDPEHVQVLIDAIHDAL 109
DM PE L +AI++AL
Sbjct: 78 SDMTPEDWLRLAEAINEAL 96
>gnl|CDD|218969 pfam06277, EutA, Ethanolamine utilisation protein EutA. This
family consists of several bacterial EutA ethanolamine
utilisation proteins. The EutA protein is thought to
protect the lyase (EutBC) from inhibition by CNB12.
Length = 473
Score = 24.9 bits (55), Expect = 9.9
Identities = 6/23 (26%), Positives = 11/23 (47%)
Query: 84 NLGHGIYPDMDPEHVQVLIDAIH 106
LG + + P+ + ID+I
Sbjct: 422 VLGQTLQALLGPKKPIICIDSIK 444
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
0.318 0.136 0.400
Gapped
Lambda K H
0.267 0.0824 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,686,940
Number of extensions: 479201
Number of successful extensions: 576
Number of sequences better than 10.0: 1
Number of HSP's gapped: 562
Number of HSP's successfully gapped: 47
Length of query: 109
Length of database: 10,937,602
Length adjustment: 74
Effective length of query: 35
Effective length of database: 7,655,406
Effective search space: 267939210
Effective search space used: 267939210
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: 53 (24.0 bits)