RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy965
(214 letters)
>gnl|CDD|188646 cd00959, DeoC, 2-deoxyribose-5-phosphate aldolase (DERA) of the
DeoC family. 2-deoxyribose-5-phosphate aldolase (DERA)
of the DeoC family. DERA belongs to the class I
aldolases and catalyzes a reversible aldol reaction
between acetaldehyde and glyceraldehyde 3-phosphate to
generate 2-deoxyribose 5-phosphate. DERA is unique in
catalyzing the aldol reaction between two aldehydes, and
its broad substrate specificity confers considerable
utility as a biocatalyst, offering an environmentally
benign alternative to chiral transition metal catalysis
of the asymmetric aldol reaction.
Length = 203
Score = 116 bits (293), Expect = 1e-32
Identities = 48/175 (27%), Positives = 68/175 (38%), Gaps = 38/175 (21%)
Query: 49 IIEFIDLTTLSGDDTEAVVETLTLKAIQP--------------LSEELKEKVLRGFVSTV 94
+ ID T L D TE + L +A + E LK ++ V TV
Sbjct: 1 LASLIDHTLLKPDATEEDIRKLCDEAKEYGFAAVCVNPCFVPLAREALKGSGVK--VCTV 58
Query: 95 WHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNN 154
GFP G E ++ E DE+D+VI + +
Sbjct: 59 --------------------IGFPLGATTTEVKVAEAREAIADGADEIDMVINIGALKSG 98
Query: 155 QWPELFSEVKQMKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ ++ E+ + E CG +K IL G L T E I A A+ AG+DFIKTS
Sbjct: 99 DYEAVYEEIAAVVEACGGA-PLKVILETGLL-TDEEIIKACEIAIEAGADFIKTS 151
>gnl|CDD|223351 COG0274, DeoC, Deoxyribose-phosphate aldolase [Nucleotide transport
and metabolism].
Length = 228
Score = 107 bits (270), Expect = 5e-29
Identities = 45/169 (26%), Positives = 71/169 (42%), Gaps = 20/169 (11%)
Query: 47 LKIIEFIDLTTLSGDDTEAVVETLTLKAIQPLSEELKEKVLRGFVST------VWHGSDN 100
+++ + ID T L D TE + L +A + GF + V +
Sbjct: 6 MQLAKLIDHTLLKPDATEEDIARLCAEAKEY-----------GFAAVCVNPSYVPLAKEA 54
Query: 101 LKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELF 160
LK V + C GFP G + E + DE+D+VI + + W +
Sbjct: 55 LKGSTVVRVCTV--IGFPLGANTTAVKAAEAREAIENGADEIDMVINIGALKSGNWEAVE 112
Query: 161 SEVKQMKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
E++ + E C + + +K IL G L E A A+ AG+DF+KTS
Sbjct: 113 REIRAVVEACADAVVLKVILETGLLTDEEKRK-ACEIAIEAGADFVKTS 160
>gnl|CDD|188634 cd00945, Aldolase_Class_I, Class I aldolases. Class I aldolases.
The class I aldolases use an active-site lysine which
stabilizes a reaction intermediates via Schiff base
formation, and have TIM beta/alpha barrel fold. The
members of this family include
2-keto-3-deoxy-6-phosphogluconate (KDPG) and
2-keto-4-hydroxyglutarate (KHG) aldolases,
transaldolase, dihydrodipicolinate synthase sub-family,
Type I 3-dehydroquinate dehydratase, DeoC and DhnA
proteins, and metal-independent
fructose-1,6-bisphosphate aldolase. Although
structurally similar, the class II aldolases use a
different mechanism and are believed to have an
independent evolutionary origin.
Length = 201
Score = 94.3 bits (235), Expect = 3e-24
Identities = 46/163 (28%), Positives = 67/163 (41%), Gaps = 20/163 (12%)
Query: 53 IDLTTLSGDDTEAVVETLTLKAIQPLSEELKEK------VLRGFVSTVWHGSDNLKTKLV 106
IDLT L D T + L +E E V G+V ++
Sbjct: 1 IDLTLLHPDATLEDIAKLC--------DEAIEYGFAAVCVNPGYVRLAADALAGSDVPVI 52
Query: 107 YQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQM 166
GFP+G E ++ E+E DE+D+VI + W E+ E+ +
Sbjct: 53 VV------VGFPTGLTTTEVKVAEVEEAIDLGADEIDVVINIGSLKEGDWEEVLEEIAAV 106
Query: 167 KEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
E + +K IL LKT++ I A+ A AG+DFIKTS
Sbjct: 107 VEAADGGLPLKVILETRGLKTADEIAKAARIAAEAGADFIKTS 149
>gnl|CDD|235387 PRK05283, PRK05283, deoxyribose-phosphate aldolase; Provisional.
Length = 257
Score = 76.9 bits (190), Expect = 3e-17
Identities = 56/175 (32%), Positives = 77/175 (44%), Gaps = 27/175 (15%)
Query: 47 LKIIEFIDLTTLSGDDTEAVVETLTLKA-----------IQPLSEELKEKVLRGFVSTVW 95
L+ + +DLTTL+ DDT+ V L +A I P + K LR
Sbjct: 8 LRALSLMDLTTLNDDDTDEKVIALCHQAKTPVGNTAAICIYPRFIPIARKTLRE------ 61
Query: 96 HGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQ-RSLVLNN 154
G+ ++ V FP G ++ L E DEVD+V R+L+ N
Sbjct: 62 QGTPEIRIATV--------TNFPHGNDDIDIALAETRAAIAYGADEVDVVFPYRALMAGN 113
Query: 155 QWPELFSEVKQMKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ F VK KE C + +K I+ GELK I AS A+ AG+DFIKTS
Sbjct: 114 E-QVGFELVKACKEACAANVLLKVIIETGELKDEALIRKASEIAIKAGADFIKTS 167
>gnl|CDD|232838 TIGR00126, deoC, deoxyribose-phosphate aldolase.
Deoxyribose-phosphate aldolase is involved in the
catabolism of nucleotides and deoxyriibonucleotides. The
catalytic process is as follows: 2-deoxy-D-ribose
5-phosphate = D-glyceraldehyde 3-phosphate +
acetaldehyde. It is found in both gram-postive and
gram-negative bacteria [Purines, pyrimidines,
nucleosides, and nucleotides, Other, Energy metabolism,
Other].
Length = 211
Score = 65.2 bits (159), Expect = 4e-13
Identities = 44/164 (26%), Positives = 69/164 (42%), Gaps = 22/164 (13%)
Query: 52 FIDLTTLSGDDTEAVVETLTLKAIQPLSEELKEKVLRGFVSTVWHGS------DNLKTKL 105
ID T L D TE + TL +A F + + S + LK
Sbjct: 5 LIDHTALKADTTEEDIITLCAQAKTY-----------KFAAVCVNPSYVPLAKELLKGTE 53
Query: 106 VYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQ 165
V + GFP G + +L+E + K DEVD+VI + + ++ +++
Sbjct: 54 VRICTV---VGFPLGASTTDVKLYETKEAIKYGADEVDMVINIGALKDGNEEVVYDDIRA 110
Query: 166 MKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
+ E C + +K I+ G L E I A + AG+DF+KTS
Sbjct: 111 VVEACA-GVLLKVIIETGLLTDEE-IRKACEICIDAGADFVKTS 152
>gnl|CDD|234784 PRK00507, PRK00507, deoxyribose-phosphate aldolase; Provisional.
Length = 221
Score = 63.7 bits (156), Expect = 2e-12
Identities = 43/176 (24%), Positives = 69/176 (39%), Gaps = 38/176 (21%)
Query: 48 KIIEFIDLTTLSGDDTEAVVETLTLKAIQ-------------PL-SEELKEKVLRGFVST 93
I ++ID T L + TE ++ L +A + L +E LK ++ V T
Sbjct: 5 DIAKYIDHTLLKPEATEEDIDKLCDEAKEYGFASVCVNPSYVKLAAELLKGSDVK--VCT 62
Query: 94 VWHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVDIVIQRSLVLN 153
V GFP G + E + DE+D+VI + +
Sbjct: 63 V--------------------IGFPLGANTTAVKAFEAKDAIANGADEIDMVINIGALKS 102
Query: 154 NQWPELFSEVKQMKEKCGEKIHMKTILAVGELKTSENIYCASMTAMFAGSDFIKTS 209
W + ++++ + E G + K I+ L T E A A AG+DF+KTS
Sbjct: 103 GDWDAVEADIRAVVEAAGGAVL-KVIIETCLL-TDEEKVKACEIAKEAGADFVKTS 156
>gnl|CDD|216703 pfam01791, DeoC, DeoC/LacD family aldolase. This family includes
diverse aldolase enzymes. This family includes the
enzyme deoxyribose-phosphate aldolase EC:4.1.2.4, which
is involved in nucleotide metabolism. The family also
includes a group of related bacterial proteins of
unknown function. The family also includes tagatose
1,6-diphosphate aldolase (EC:4.1.2.40) is part of the
tagatose-6-phosphate pathway of galactose-6-phosphate
degradation.
Length = 231
Score = 55.4 bits (134), Expect = 2e-09
Identities = 39/176 (22%), Positives = 70/176 (39%), Gaps = 36/176 (20%)
Query: 53 IDLTTLSGDDTEAV-VETLTLKAIQPLSEELKEKVLRGFVSTVWH------GSDNLKTKL 105
ID T L+ DT + ++ L +A++P G + + + L
Sbjct: 6 IDHTVLNPPDTASADIKALVAEALEP-----------GASAVCVNPGYVALAARLLGKVD 54
Query: 106 VYQPCLSQPAGFPSGQYLLETR-----LHEIELLAKQKVDEVDIVIQRSLVLNNQWPELF 160
+ + GFP+G YL + + E E DEVD+V+ + ++
Sbjct: 55 I--ALV---IGFPAGTYLTPVKGRDVLVAEAEEAIALGADEVDMVVNIGADGSEDEEQVL 109
Query: 161 SEVKQMKEKCGEKIHMKTIL-------AVGELKTSENIYCASMTAMFAGSDFIKTS 209
+E+ +KE C + +K IL + + + A+ AG+DF+KTS
Sbjct: 110 AEIAAVKEACHGE-GLKVILEAYLRGEEIKDKVDPHLVAKATRVGAEAGADFVKTS 164
>gnl|CDD|133047 cd06425, M1P_guanylylT_B_like_N, N-terminal domain of the
M1P-guanylyltransferase B-isoform like proteins.
GDP-mannose pyrophosphorylase (GTP:
alpha-d-mannose-1-phosphate guanyltransferase) catalyzes
the formation of GDP-d-mannose from GTP and
alpha-d-mannose-1-Phosphate. It contains an N-terminal
catalytic domain and a C-terminal Lefthanded-beta-Helix
fold domain. GDP-d-mannose is the activated form of
mannose for formation of cell wall lipoarabinomannan and
various mannose-containing glycolipids and
polysaccharides. The function of GDP-mannose
pyrophosphorylase is essential for cell wall integrity,
morphogenesis and viability. Repression of GDP-mannose
pyrophosphorylase in yeast leads to phenotypes, such as
cell lysis, defective cell wall, and failure of
polarized growth and cell separation.
Length = 233
Score = 31.4 bits (72), Expect = 0.27
Identities = 15/49 (30%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 128 LHEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSEVKQMKEKCGEKIHM 176
H+IE LAK V E+ L +N + ++ +K+ ++K G KI
Sbjct: 35 EHQIEALAKAGVKEI------ILAVNYRPEDMVPFLKEYEKKLGIKITF 77
>gnl|CDD|216915 pfam02171, Piwi, Piwi domain. This domain is found in the protein
Piwi and its relatives. The function of this domain is
the dsRNA guided hydrolysis of ssRNA. Determination of
the crystal structure of Argonaute reveals that PIWI is
an RNase H domain, and identifies Argonaute as Slicer,
the enzyme that cleaves mRNA in the RNAi RISC complex.
In addition, Mg+2 dependence and production of 3'-OH and
5' phosphate products are shared characteristics of
RNaseH and RISC. The PIWI domain core has a tertiary
structure belonging to the RNase H family of enzymes.
RNase H fold proteins all have a five-stranded mixed
beta-sheet surrounded by helices. By analogy to RNase H
enzymes which cleave single-stranded RNA guided by the
DNA strand in an RNA/DNA hybrid, the PIWI domain can be
inferred to cleave single-stranded RNA, for example
mRNA, guided by double stranded siRNA.
Length = 296
Score = 30.7 bits (70), Expect = 0.44
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 7/86 (8%)
Query: 89 GFVSTVWHGSDNLKTKLVYQPCLSQPAGFPSGQYLLETRLHEIELLAKQKVDEVD-IVIQ 147
GFV+++ D K Q +G + L E L + K + + + I++
Sbjct: 94 GFVASM----DKHPQKY-AGGVRYQASGQELIEPLKEIILESLRSFYKSRKKKPERIIVY 148
Query: 148 RSLVLNNQWPELF-SEVKQMKEKCGE 172
R V Q+P++ EV Q+KE C E
Sbjct: 149 RDGVSEGQFPQVLNYEVNQIKEACKE 174
>gnl|CDD|236547 PRK09521, PRK09521, exosome complex RNA-binding protein Csl4;
Provisional.
Length = 189
Score = 29.6 bits (67), Expect = 0.84
Identities = 13/48 (27%), Positives = 24/48 (50%), Gaps = 5/48 (10%)
Query: 14 VHDIQINTKYLEDLTRQFEAVDLSRIKNKKSLLLKIIEFIDLTTLSGD 61
+H Q++ Y+E LT F+ D+ R K ++ + + L+T D
Sbjct: 102 IHISQVSDGYVESLTDAFKIGDIVRAK-----VISYTDPLQLSTKGKD 144
>gnl|CDD|236903 PRK11380, PRK11380, hypothetical protein; Provisional.
Length = 353
Score = 28.7 bits (64), Expect = 2.2
Identities = 25/94 (26%), Positives = 38/94 (40%), Gaps = 21/94 (22%)
Query: 72 LKAIQPLSEELKEKVLR-GFVSTVWHG--SDNLKTKLVYQPCLSQPAGFPSGQYLLETRL 128
K I+PLSEE K + L+ V +HG S+ L+ P +P ++L
Sbjct: 107 AKGIEPLSEE-KRQALQLIAVYRFYHGQWSETLEF----WPRKPRPGKDTFQYHVL---- 157
Query: 129 HEIELLAKQKVDEVDIVIQRSLVLNNQWPELFSE 162
D +DI+ +R L + W SE
Sbjct: 158 ---------PFDSIDIISKRRESLEDDWGIEDSE 182
>gnl|CDD|214828 smart00811, Alpha_kinase, Alpha-kinase family. This family is a
novel family of eukaryotic protein kinase catalytic
domains, which have no detectable similarity to
conventional kinases. The family contains myosin heavy
chain kinases and Elongation Factor-2 kinase and a
bifunctional ion channel. This family is known as the
alpha-kinase family. The structure of the kinase domain
revealed unexpected similarity to eukaryotic protein
kinases in the catalytic core as well as to metabolic
enzymes with ATP-grasp domains.
Length = 198
Score = 28.1 bits (63), Expect = 2.8
Identities = 14/50 (28%), Positives = 19/50 (38%), Gaps = 3/50 (6%)
Query: 12 KWVHDIQINTK---YLEDLTRQFEAVDLSRIKNKKSLLLKIIEFIDLTTL 58
K+ NT Y ED+ Q A + N+ K IEF+ L
Sbjct: 45 KYFKKEYKNTVEDRYFEDVEMQMVAKKFAEEFNQLKPSPKKIEFLPSYVL 94
>gnl|CDD|238763 cd01486, Apg7, Apg7 is an E1-like protein, that activates two
different ubiquitin-like proteins, Apg12 and Apg8, and
assigns them to specific E2 enzymes, Apg10 and Apg3,
respectively. This leads to the covalent conjugation of
Apg8 with phosphatidylethanolamine, an important step in
autophagy. Autophagy is a dynamic membrane phenomenon
for bulk protein degradation in the lysosome/vacuole.
Length = 307
Score = 28.1 bits (63), Expect = 3.0
Identities = 8/26 (30%), Positives = 16/26 (61%)
Query: 3 LDQYNTTDFKWVHDIQINTKYLEDLT 28
+D+Y+ +++V + YLE+LT
Sbjct: 280 IDEYHREGWEFVLKAFNSPDYLEELT 305
>gnl|CDD|236241 PRK08324, PRK08324, short chain dehydrogenase; Validated.
Length = 681
Score = 28.3 bits (64), Expect = 3.5
Identities = 18/73 (24%), Positives = 31/73 (42%), Gaps = 9/73 (12%)
Query: 143 DIVIQRSLVLNNQWPELFSEVKQMKEKCGEKIHMKTILAVGELK---TSENIYCASMTAM 199
D V++ S + +W E + + E+ E+ + L LK T E++ A
Sbjct: 602 DAVVRGSGIWTGEWIEARAAAYGLSEEELEEFYRARNL----LKREVTPEDV--AEAVVF 655
Query: 200 FAGSDFIKTSGSI 212
A KT+G+I
Sbjct: 656 LASGLLSKTTGAI 668
>gnl|CDD|183746 PRK12789, flgI, flagellar basal body P-ring protein; Reviewed.
Length = 367
Score = 28.2 bits (63), Expect = 3.5
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 4/33 (12%)
Query: 91 VSTV--WHGSDNLKTKLVYQPCLSQPAGFPSGQ 121
+STV HG NL ++ P +SQPA F +GQ
Sbjct: 274 ISTVAVTHG--NLTVRVTEAPEVSQPAPFSNGQ 304
>gnl|CDD|129652 TIGR00561, pntA, NAD(P) transhydrogenase, alpha subunit. This
integral membrane protein is the alpha subunit of alpha
2 beta 2 tetramer that couples the proton transport
across the membrane to the reversible transfer of
hydride ion equivalents between NAD and NADP. An
alternate name is pyridine nucleotide transhydrogenase
alpha subunit. The N-terminal region is homologous to
alanine dehydrogenase. In some species, such as
Rhodospirillum rubrum, the alpha chain is replaced by
two shorter chains, both with some homology to the
full-length alpha chain modeled here. These score below
the trusted cutoff [Energy metabolism, Electron
transport].
Length = 511
Score = 27.6 bits (61), Expect = 5.2
Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 3/40 (7%)
Query: 130 EIELLAKQKVDEVDIVIQRSLVLNNQWPELFSE--VKQMK 167
E+EL A Q EVDI+I +L+ P+L +E V MK
Sbjct: 237 EMELFAAQ-AKEVDIIITTALIPGKPAPKLITEEMVDSMK 275
>gnl|CDD|216303 pfam01112, Asparaginase_2, Asparaginase.
Length = 296
Score = 27.4 bits (61), Expect = 6.3
Identities = 15/58 (25%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 28 TRQFEAV-DLSRIKNKKSLLLKIIEFIDLTTLSGDDTEAVVETLTLKAIQPLSEELKE 84
T + AV LSRIKN S+ ++E L G+ ++ + + E +E
Sbjct: 72 TMRVGAVAGLSRIKNPISVARLVMEKTPHILLVGEGATLFAKSQGFETEDLSTFETQE 129
>gnl|CDD|213772 TIGR03081, metmalonyl_epim, methylmalonyl-CoA epimerase. Members
of this protein family are the enzyme methylmalonyl-CoA
epimerase (EC 5.1.99.1), also called methylmalonyl-CoA
racemase. This enzyme converts (2R)-methylmalonyl-CoA to
(2S)-methylmalonyl-CoA, which is then a substrate for
methylmalonyl-CoA mutase (TIGR00642). It is known in
bacteria, archaea, and as a mitochondrial protein in
animals. It is closely related to lactoylglutathione
lyase (TIGR00068), which is also called glyoxylase I,
and is also a homodimer.
Length = 128
Score = 26.5 bits (59), Expect = 6.6
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 61 DDTEAVVETLTLKAIQPLSEELK 83
DD EA +ETL K ++ + EE +
Sbjct: 81 DDIEAALETLKEKGVRLIDEEPR 103
>gnl|CDD|240424 PTZ00455, PTZ00455, 3-ketoacyl-CoA thiolase; Provisional.
Length = 438
Score = 26.8 bits (59), Expect = 9.1
Identities = 11/20 (55%), Positives = 14/20 (70%), Gaps = 1/20 (5%)
Query: 164 KQMKEKCGEKIHMKTILAVG 183
+QMK +CGE MK I A+G
Sbjct: 400 RQMKGQCGE-YQMKNIPALG 418
>gnl|CDD|224086 COG1164, COG1164, Oligoendopeptidase F [Amino acid transport and
metabolism].
Length = 598
Score = 26.9 bits (60), Expect = 9.5
Identities = 20/98 (20%), Positives = 33/98 (33%), Gaps = 20/98 (20%)
Query: 4 DQYNTTDFKWVHDIQINTKYLEDLTRQFEAVDLSRIKNKKSLL-LKIIEFIDLTTLSGDD 62
++ + + + + +L L R K + +L L+ + DL D
Sbjct: 256 NEVDREVVDNLIE-SVKEAFLPLLHR--------YYKLRAKVLGLEKLRPYDLYAPLLDK 306
Query: 63 T--------EAVVETLTLKAIQPLSEELKEKVLRGFVS 92
EA L LKA+ PL E + R F
Sbjct: 307 DPSPEYSYEEAK--ELVLKALAPLGPEYAKIARRAFDE 342
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 0.375
Gapped
Lambda K H
0.267 0.0707 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 10,510,923
Number of extensions: 979429
Number of successful extensions: 996
Number of sequences better than 10.0: 1
Number of HSP's gapped: 986
Number of HSP's successfully gapped: 32
Length of query: 214
Length of database: 10,937,602
Length adjustment: 93
Effective length of query: 121
Effective length of database: 6,812,680
Effective search space: 824334280
Effective search space used: 824334280
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: 57 (25.8 bits)