RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 041704
(86 letters)
>gnl|CDD|185508 PTZ00194, PTZ00194, 60S ribosomal protein L26; Provisional.
Length = 143
Score = 44.4 bits (105), Expect = 3e-07
Identities = 18/28 (64%), Positives = 21/28 (75%)
Query: 2 SMSVRKDDEVQVVGGTYKGREGKFVQIF 29
SM VRKDDEV VV G +KGREGK ++
Sbjct: 44 SMPVRKDDEVMVVRGHHKGREGKVTAVY 71
>gnl|CDD|130152 TIGR01080, rplX_A_E, ribosomal protein L24p/L26e,
archaeal/eukaryotic. This model represents the
archaeal and eukaryotic branch of the ribosomal protein
L24p/L26e family. Bacterial and organellar forms are
represented by related model TIGR01079 [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 114
Score = 39.4 bits (92), Expect = 2e-05
Identities = 11/27 (40%), Positives = 20/27 (74%)
Query: 2 SMSVRKDDEVQVVGGTYKGREGKFVQI 28
++ VRK D+V+++ G +KG EGK ++
Sbjct: 39 ALPVRKGDKVRIMRGDFKGHEGKVSKV 65
>gnl|CDD|223276 COG0198, RplX, Ribosomal protein L24 [Translation, ribosomal
structure and biogenesis].
Length = 104
Score = 36.5 bits (85), Expect = 2e-04
Identities = 13/29 (44%), Positives = 20/29 (68%)
Query: 1 MSMSVRKDDEVQVVGGTYKGREGKFVQIF 29
M M V+K D V+V+ G KG+EGK +++
Sbjct: 1 MKMKVKKGDTVKVIAGKDKGKEGKVLKVL 29
>gnl|CDD|234566 PRK00004, rplX, 50S ribosomal protein L24; Reviewed.
Length = 105
Score = 35.1 bits (82), Expect = 7e-04
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 1 MSMSVRKDDEVQVVGGTYKGREGKFVQIF 29
M M ++K D V V+ G KG+ GK +++
Sbjct: 1 MMMKIKKGDTVIVIAGKDKGKRGKVLKVL 29
>gnl|CDD|240513 cd06089, KOW_RPL26, KOW motif of Ribosomal Protein L26. RPL26
and its bacterial paralogs RPL24 have a KOW motif at
their N terminal. KOW domain is known as an RNA-binding
motif that is shared so far among some families of
ribosomal proteins, the essential bacterial
transcriptional elongation factor NusG, the eukaryotic
chromatin elongation factor Spt5, the higher eukaryotic
KIN17 proteins and Mtr4. RPL26 makes a very minor
contributions to the biogenesis, structure, and
function of 60s ribosomal subunits. However, RPL24 is
essential to generate the first intermediate during 50s
ribosomal subunits assembly. RPL26 have an
extra-ribosomal function to enhances p53 translation
after DNA damage.
Length = 65
Score = 31.7 bits (73), Expect = 0.006
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 8 DDEVQVVGGTYKGREGKFVQIF 29
DEVQV+ G KG++GK +++
Sbjct: 1 GDEVQVIRGKDKGKQGKVLKVD 22
>gnl|CDD|128978 smart00739, KOW, KOW (Kyprides, Ouzounis, Woese) motif. Motif in
ribosomal proteins, NusG, Spt5p, KIN17 and T54.
Length = 28
Score = 30.4 bits (70), Expect = 0.010
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 5 VRKDDEVQVVGGTYKGREGKFVQI 28
D V+V+ G +KG+ GK +++
Sbjct: 2 FEVGDTVRVIAGPFKGKVGKVLEV 25
>gnl|CDD|233263 TIGR01079, rplX_bact, ribosomal protein L24, bacterial/organelle.
This model recognizes bacterial and organellar forms
of ribosomal protein L24. It excludes eukaryotic and
archaeal forms, designated L26 in eukaryotes [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 104
Score = 31.5 bits (72), Expect = 0.016
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 3 MSVRKDDEVQVVGGTYKGREGKFVQIF 29
M ++K D V+V+ G KG+ GK +++
Sbjct: 2 MKIKKGDTVKVISGKDKGKRGKVLKVL 28
>gnl|CDD|144165 pfam00467, KOW, KOW motif. This family has been extended to
coincide with ref. The KOW (Kyprides, Ouzounis, Woese)
motif is found in a variety of ribosomal proteins and
NusG.
Length = 32
Score = 29.7 bits (68), Expect = 0.018
Identities = 10/23 (43%), Positives = 17/23 (73%)
Query: 7 KDDEVQVVGGTYKGREGKFVQIF 29
K D V+V+ G +KG++GK V++
Sbjct: 1 KGDVVRVISGPFKGKKGKVVEVD 23
>gnl|CDD|183399 PRK12281, rplX, 50S ribosomal protein L24; Reviewed.
Length = 76
Score = 30.0 bits (68), Expect = 0.042
Identities = 14/41 (34%), Positives = 22/41 (53%), Gaps = 5/41 (12%)
Query: 1 MSMSVRKDDEVQVVGGTYKGREGKFVQIFA-----IFSGVK 36
+ + V+K D V+V+ G KG+ GK + + I GVK
Sbjct: 3 VKLKVKKGDMVKVIAGDDKGKTGKVLAVLPKKNRVIVEGVK 43
>gnl|CDD|214374 CHL00141, rpl24, ribosomal protein L24; Validated.
Length = 83
Score = 28.8 bits (65), Expect = 0.099
Identities = 9/29 (31%), Positives = 18/29 (62%)
Query: 1 MSMSVRKDDEVQVVGGTYKGREGKFVQIF 29
M V+ D V+++ G+ KG+ G+ ++I
Sbjct: 5 KKMHVKIGDTVKIISGSDKGKIGEVLKII 33
>gnl|CDD|240508 cd06084, KOW_Spt5_4, KOW domain of Spt5, repeat 4. Spt5, an
eukaryotic ortholog of NusG, contains multiple KOW
motifs at its C-terminus. Spt5 is involved in
transcription elongation and termination. KOW domain is
known as an RNA-binding motif that is shared so far
among some families of ribosomal proteins, the
essential bacterial transcriptional elongation factor
NusG, the eukaryotic chromatin elongation factor Spt5,
the higher eukaryotic KIN17 proteins and Mtr4. KOW_Spt5
domains play critical roles in recruitment of multiple
other eukaryotic transcription elongation and RNA
biogenesis factors and additionally are involved in the
binding of the eukaryotic Spt5 proteins to RNA
polymerases.
Length = 43
Score = 28.3 bits (64), Expect = 0.099
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 8 DDEVQVVGGTYKGREGKFVQIF 29
D V+VV G YKGR+G + I+
Sbjct: 1 GDTVKVVDGPYKGRQGTVLHIY 22
>gnl|CDD|143422 cd07104, ALDH_BenzADH-like, ALDH subfamily: NAD(P)+-dependent
benzaldehyde dehydrogenase II, vanillin dehydrogenase,
p-hydroxybenzaldehyde dehydrogenase and related
proteins. ALDH subfamily which includes the
NAD(P)+-dependent, benzaldehyde dehydrogenase II (XylC,
BenzADH, EC=1.2.1.28) involved in the oxidation of
benzyl alcohol to benzoate; p-hydroxybenzaldehyde
dehydrogenase (PchA, HBenzADH) which catalyzes the
oxidation of p-hydroxybenzaldehyde to p-hydroxybenzoic
acid; vanillin dehydrogenase (Vdh, VaniDH) involved in
the metabolism of ferulic acid as seen in Pseudomonas
putida KT2440; and other related sequences.
Length = 431
Score = 29.8 bits (68), Expect = 0.13
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 13 VVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPV 56
+ GGTY+G F Q + S V D+ + E IF P P+ P
Sbjct: 308 LTGGTYEGL---FYQP-TVLSDVTPDMPIFREEIFGPVAPVIPF 347
>gnl|CDD|143461 cd07143, ALDH_AldA_AN0554, Aspergillus nidulans aldehyde
dehydrogenase, AldA (AN0554)-like. NAD(P)+-dependent
aldehyde dehydrogenase (AldA) of Aspergillus nidulans
(locus AN0554), and other similar sequences, are present
in this CD.
Length = 481
Score = 29.4 bits (66), Expect = 0.16
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 14 VGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP 49
GG G EG F++ IF+ V D+ + E IF P
Sbjct: 355 TGGKRHGNEGYFIEP-TIFTDVTEDMKIVKEEIFGP 389
>gnl|CDD|234915 PRK01191, rpl24p, 50S ribosomal protein L24P; Validated.
Length = 120
Score = 29.1 bits (66), Expect = 0.16
Identities = 14/27 (51%), Positives = 20/27 (74%)
Query: 2 SMSVRKDDEVQVVGGTYKGREGKFVQI 28
S+ VRK D V+V+ G +KG EGK V++
Sbjct: 43 SLPVRKGDTVKVMRGDFKGEEGKVVEV 69
>gnl|CDD|143433 cd07115, ALDH_HMSADH_HapE, Pseudomonas fluorescens 4-hydroxymuconic
semialdehyde dehydrogenase-like. 4-hydroxymuconic
semialdehyde dehydrogenase (HapE, EC=1.2.1.61) of
Pseudomonas fluorescens ACB involved in
4-hydroxyacetophenone degradation, and putative
hydroxycaproate semialdehyde dehydrogenase (ChnE) of
Brachymonas petroleovorans involved in cyclohexane
metabolism, and other similar sequences, are present in
this CD.
Length = 453
Score = 29.3 bits (66), Expect = 0.17
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 6 RKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP 49
R++ + GG G G FV+ IF+ V ++ ++ E IF P
Sbjct: 319 REEGARLLTGGKRPGARGFFVEP-TIFAAVPPEMRIAQEEIFGP 361
>gnl|CDD|215767 pfam00171, Aldedh, Aldehyde dehydrogenase family. This family of
dehydrogenases act on aldehyde substrates. Members use
NADP as a cofactor. The family includes the following
members: The prototypical members are the aldehyde
dehydrogenases EC:1.2.1.3. Succinate-semialdehyde
dehydrogenase EC:1.2.1.16. Lactaldehyde dehydrogenase
EC:1.2.1.22. Benzaldehyde dehydrogenase EC:1.2.1.28.
Methylmalonate-semialdehyde dehydrogenase EC:1.2.1.27.
Glyceraldehyde-3-phosphate dehydrogenase EC:1.2.1.9.
Delta-1-pyrroline-5-carboxylate dehydrogenase EC:
1.5.1.12. Acetaldehyde dehydrogenase EC:1.2.1.10.
Glutamate-5-semialdehyde dehydrogenase EC:1.2.1.41. This
family also includes omega crystallin, an eye lens
protein from squid and octopus that has little aldehyde
dehydrogenase activity.
Length = 459
Score = 29.0 bits (66), Expect = 0.24
Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 13 VVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPV 56
+ GG +G FV+ + + V D+ ++ E IF P + + P
Sbjct: 335 LCGGEAGLEKGYFVEP-TVLADVTPDMRIAQEEIFGPVLSVIPF 377
>gnl|CDD|143460 cd07142, ALDH_F2BC, Arabidosis aldehyde dehydrogenase family 2 B4,
B7, C4-like. Included in this CD is the Arabidosis
aldehyde dehydrogenase family 2 members B4 and B7
(EC=1.2.1.3), which are mitochondrial homotetramers
that oxidize acetaldehyde and glycolaldehyde, but not
L-lactaldehyde. Also in this group, is the Arabidosis
cytosolic, homotetramer ALDH2C4 (EC=1.2.1.3), an enzyme
involved in the oxidation of sinapalehyde and
coniferaldehyde.
Length = 476
Score = 28.6 bits (64), Expect = 0.28
Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 13 VVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP 49
+ GG G +G ++Q IFS VK D+ ++ + IF P
Sbjct: 351 ITGGDRIGSKGYYIQP-TIFSDVKDDMKIARDEIFGP 386
>gnl|CDD|143459 cd07141, ALDH_F1AB_F2_RALDH1, NAD+-dependent retinal dehydrogenase
1, ALDH families 1A, 1B, and 2-like. NAD+-dependent
retinal dehydrogenase 1 (RALDH 1, ALDH1, EC=1.2.1.36)
also known as aldehyde dehydrogenase family 1 member A1
(ALDH1A1) in humans, is a homotetrameric, cytosolic
enzyme that catalyzes the oxidation of retinaldehyde to
retinoic acid. Human ALDH1B1 and ALDH2 are also in this
cluster; both are mitochrondrial homotetramers which
play important roles in acetaldehyde oxidation; ALDH1B1
in response to UV light exposure and ALDH2 during
ethanol metabolism.
Length = 481
Score = 28.9 bits (65), Expect = 0.30
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 13 VVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP 49
GG G +G F+Q +FS V D+ ++ E IF P
Sbjct: 355 ECGGKRHGDKGYFIQP-TVFSDVTDDMRIAKEEIFGP 390
>gnl|CDD|215259 PLN02466, PLN02466, aldehyde dehydrogenase family 2 member.
Length = 538
Score = 28.6 bits (64), Expect = 0.36
Identities = 12/37 (32%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 13 VVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP 49
GG G +G ++Q +FS V+ D++++ + IF P
Sbjct: 405 ECGGDRFGSKGYYIQP-TVFSNVQDDMLIAQDEIFGP 440
>gnl|CDD|179543 PRK03137, PRK03137, 1-pyrroline-5-carboxylate dehydrogenase;
Provisional.
Length = 514
Score = 28.0 bits (63), Expect = 0.46
Identities = 13/37 (35%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 13 VVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP 49
V+GG +G F+Q IF+ V + E IF P
Sbjct: 384 VLGGEGDDSKGYFIQP-TIFADVDPKARIMQEEIFGP 419
>gnl|CDD|143468 cd07150, ALDH_VaniDH_like, Pseudomonas putida vanillin
dehydrogenase-like. Vanillin dehydrogenase (Vdh,
VaniDH) involved in the metabolism of ferulic acid and
other related sequences are included in this CD. The
E. coli vanillin dehydrogenase (LigV) preferred NAD+ to
NADP+ and exhibited a broad substrate preference,
including vanillin, benzaldehyde, protocatechualdehyde,
m-anisaldehyde, and p-hydroxybenzaldehyde.
Length = 451
Score = 27.3 bits (61), Expect = 1.0
Identities = 12/43 (27%), Positives = 18/43 (41%), Gaps = 4/43 (9%)
Query: 14 VGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPV 56
GG Y +G F Q + + V D+ + E F P + P
Sbjct: 329 TGGKY---DGNFYQP-TVLTDVTPDMRIFREETFGPVTSVIPA 367
>gnl|CDD|215410 PLN02766, PLN02766, coniferyl-aldehyde dehydrogenase.
Length = 501
Score = 27.1 bits (60), Expect = 1.2
Identities = 12/41 (29%), Positives = 23/41 (56%), Gaps = 1/41 (2%)
Query: 13 VVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPL 53
+ GG G +G +++ IF+ V D+ ++ + IF P + L
Sbjct: 368 LTGGKPCGDKGYYIEP-TIFTDVTEDMKIAQDEIFGPVMSL 407
>gnl|CDD|143436 cd07118, ALDH_SNDH, Gluconobacter oxydans L-sorbosone
dehydrogenase-like. Included in this CD is the
L-sorbosone dehydrogenase (SNDH) from Gluconobacter
oxydans UV10. In G. oxydans, D-sorbitol is converted to
2-keto-L-gulonate (a precursor of L-ascorbic acid) in
sequential oxidation steps catalyzed by a FAD-dependent,
L-sorbose dehydrogenase and an NAD(P)+-dependent,
L-sorbosone dehydrogenase.
Length = 454
Score = 25.8 bits (57), Expect = 2.7
Identities = 12/35 (34%), Positives = 16/35 (45%), Gaps = 1/35 (2%)
Query: 15 GGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP 49
G G F Q IF+ V D+ ++ E IF P
Sbjct: 331 GERLASAAGLFYQP-TIFTDVTPDMAIAREEIFGP 364
>gnl|CDD|239544 cd03461, 1,2-HQD, Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes
the ring cleavage of hydroxyquinol
(1,2,4-trihydroxybenzene), a intermediate in the
degradation of a large variety of aromatic compounds
including some polychloro- and nitroaromatic pollutants,
to form 3-hydroxy-cis,cis-muconates. 1,2-HQD blongs to
the aromatic dioxygenase family, a family of mononuclear
non-heme intradiol-cleaving enzymes.
Length = 277
Score = 25.3 bits (56), Expect = 4.3
Identities = 12/28 (42%), Positives = 15/28 (53%), Gaps = 1/28 (3%)
Query: 30 AIFSGVKRDLVVSYEPIFDPRIPLEPVG 57
A+F GVK LVV + P+ D P V
Sbjct: 238 AVF-GVKDSLVVDFVPVEDDDAPGRLVP 264
>gnl|CDD|180437 PRK06169, PRK06169, putative amidase; Provisional.
Length = 466
Score = 25.4 bits (56), Expect = 4.4
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 6/47 (12%)
Query: 26 VQIFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSVMSSVGRMSPEV 72
V+I A F G ++P F R+PL P ++ VG M+ V
Sbjct: 181 VRIPASFCGT-----FGFKPTFG-RVPLYPASPFGTLAHVGPMTRTV 221
>gnl|CDD|143456 cd07138, ALDH_CddD_SSP0762, Rhodococcus ruber 6-oxolauric acid
dehydrogenase-like. The 6-oxolauric acid dehydrogenase
(CddD) from Rhodococcus ruber SC1 which converts
6-oxolauric acid to dodecanedioic acid, and the aldehyde
dehydrogenase (locus SSP0762) from Staphylococcus
saprophyticus subsp. saprophyticus ATCC 15305 and other
similar sequences, are included in this CD.
Length = 466
Score = 25.2 bits (56), Expect = 4.5
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 13 VVGGTYK--GRE-GKFVQIFAIFSGVKRDLVVSYEPIFDP 49
V GG + G E G FV+ +F+ V D+ ++ E IF P
Sbjct: 339 VAGGPGRPEGLERGYFVKP-TVFADVTPDMTIAREEIFGP 377
>gnl|CDD|143421 cd07103, ALDH_F5_SSADH_GabD, Mitochondrial succinate-semialdehyde
dehydrogenase and ALDH family members 5A1 and 5F1-like.
Succinate-semialdehyde dehydrogenase, mitochondrial
(SSADH, GabD, EC=1.2.1.24) catalyzes the NAD+-dependent
oxidation of succinate semialdehyde (SSA) to succinate.
This group includes the human aldehyde dehydrogenase
family 5 member A1 (ALDH5A1) which is a mitochondrial
homotetramer that converts SSA to succinate in the last
step of 4-aminobutyric acid (GABA) catabolism. This CD
also includes the Arabidopsis SSADH gene product
ALDH5F1. Mutations in this gene result in the
accumulation of H2O2, suggesting a role in plant defense
against the environmental stress of elevated reactive
oxygen species.
Length = 451
Score = 25.1 bits (56), Expect = 4.8
Identities = 12/44 (27%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 13 VVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPLEPV 56
+ GG G G F + + + V D+++ E F P P+ P
Sbjct: 326 LTGGKRLGLGGYFYE-PTVLTDVTDDMLIMNEETFGPVAPIIPF 368
>gnl|CDD|193539 cd05663, M28_like_PA_PDZ_associated, M28 Zn-Peptidases containing a
PA domain insert and associated with a PDZ domain.
Peptidase family M28 (also called aminopeptidase Y
family), uncharacterized subfamily. The M28 family
contains aminopeptidases as well as carboxypeptidases.
They have co-catalytic zinc ions; each zinc ion is
tetrahedrally co-ordinated, with three amino acid
ligands plus activated water; one aspartate residue
binds both metal ions. This subfamily is composed of
uncharacterized proteins, many of which contain a
protease-associated (PA) domain insert which may
participate in substrate binding and/or promote
conformational changes, influencing the stability and
accessibility of the site to substrate. Proteins in this
subfamily are also associated with the PDZ domain, a
widespread protein module that has been recruited to
serve multiple functions during the course of evolution.
Length = 260
Score = 24.9 bits (55), Expect = 5.3
Identities = 13/44 (29%), Positives = 21/44 (47%)
Query: 28 IFAIFSGVKRDLVVSYEPIFDPRIPLEPVGHSSVMSSVGRMSPE 71
+F FSG + L+ S + +P PL+ V + VGR+
Sbjct: 127 LFIAFSGEELGLLGSKHFVENPTFPLDKVVAMLNLDMVGRLRDN 170
>gnl|CDD|236047 PRK07560, PRK07560, elongation factor EF-2; Reviewed.
Length = 731
Score = 25.2 bits (56), Expect = 5.6
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 4/39 (10%)
Query: 2 SMSVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKRDLV 40
S ++RK EV +VG K R VQ I+ G +R+ V
Sbjct: 314 SGTLRKGQEVYLVGAKKKNR----VQQVGIYMGPEREEV 348
>gnl|CDD|143441 cd07123, ALDH_F4-17_P5CDH, Delta(1)-pyrroline-5-carboxylate
dehydrogenase, ALDH families 4 and 17.
Delta(1)-pyrroline-5-carboxylate dehydrogenase
(EC=1.5.1.12 ), families 4 and 17: a proline catabolic
enzyme of the aldehyde dehydrogenase (ALDH) protein
superfamily. Delta(1)-pyrroline-5-carboxylate
dehydrogenase (P5CDH), also known as ALDH4A1 in humans,
is a mitochondrial homodimer involved in proline
degradation and catalyzes the NAD + -dependent
conversion of P5C to glutamate. This is a necessary step
in the pathway interconnecting the urea and
tricarboxylic acid cycles. The preferred substrate is
glutamic gamma-semialdehyde, other substrates include
succinic, glutaric and adipic semialdehydes. Also
included in this CD is the Aldh17 Drosophila
melanogaster (Q9VUC0) P5CDH and similar sequences.
Length = 522
Score = 24.9 bits (55), Expect = 5.9
Identities = 7/23 (30%), Positives = 12/23 (52%), Gaps = 1/23 (4%)
Query: 6 RKDDEVQVV-GGTYKGREGKFVQ 27
+ D E +++ GG G FV+
Sbjct: 377 KSDPEAEIIAGGKCDDSVGYFVE 399
>gnl|CDD|188167 TIGR01780, SSADH, succinate-semialdehyde dehydrogenase. Succinic
semialdehyde dehydrogenase is one of three enzymes
constituting 4-aminobutyrate (GABA) degradation in both
prokaryotes and eukaryotes, catalyzing the
(NAD(P)+)-dependent catabolism reaction of succinic
semialdehyde to succinate for metabolism by the citric
acid cycle. The EC number depends on the cofactor:
1.2.1.24 for NAD only, 1.2.1.79 for NADP only, and
1.2.1.16 if both can be used. In Escherichia coli,
succinic semialdehyde dehydrogenase is located in an
unidirectionally transcribed gene cluster encoding
enzymes for GABA degradation and is suggested to be
cotranscribed with succinic semialdehyde transaminase
from a common promoter upstream of SSADH. Similar gene
arrangements can be found in characterized Ralstonia
eutropha and the genome analysis of Bacillus subtilis.
Prokaryotic succinic semialdehyde dehydrogenases
(1.2.1.16) share high sequence homology to characterized
succinic semialdehyde dehydrogenases from rat and human
(1.2.1.24), exhibiting conservation of proposed cofactor
binding residues, and putative active sites (G-237 &
G-242, C-293 & G-259 respectively of rat SSADH).
Eukaryotic SSADH enzymes exclusively utilize NAD+ as a
cofactor, exhibiting little to no NADP+ activity. While
a NADP+ preference has been detected in prokaryotes in
addition to both NADP+- and NAD+-dependencies as in
E.coli, Pseudomonas, and Klebsiella pneumoniae. The
function of this alternative SSADH currently is unknown,
but has been suggested to play a possible role in
4-hydroxyphenylacetic degradation. Just outside the
scope of this model, are several sequences belonging to
clades scoring between trusted and noise. These
sequences may be actual SSADH enzymes, but lack
sufficiently close characterized homologs to make a
definitive assignment at this time. SSADH enzyme belongs
to the aldehyde dehydrogenase family (pfam00171),
sharing a common evolutionary origin and enzymatic
mechanism with lactaldehyde dehydrogenase. Like in
lactaldehyde dehydrogenase and succinate semialdehyde
dehydrogenase, the mammalian catalytic glutamic acid and
cysteine residues are conserved in all the enzymes of
this family (PS00687, PS00070) [Central intermediary
metabolism, Other].
Length = 448
Score = 25.1 bits (55), Expect = 6.0
Identities = 14/41 (34%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 13 VVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDPRIPL 53
V GG G F + + S V D++VS E F P P+
Sbjct: 327 VTGGKRHELGGNFFEP-TVLSNVTADMLVSKEETFGPLAPV 366
>gnl|CDD|201239 pfam00455, DeoRC, DeoR C terminal sensor domain. The sensor
domains of the DeoR are catalytically inactive versions
of the ISOCOT fold, but retain the substrate binding
site. DeorC senses diverse sugar derivatives such as
deoxyribose nucleoside (DeoR), tagatose phosphate
(LacR), galactosamine (AgaR), myo-inositol (Bacillus
IolR) and L-ascorbate (UlaR).
Length = 162
Score = 24.4 bits (54), Expect = 7.2
Identities = 9/29 (31%), Positives = 16/29 (55%)
Query: 3 MSVRKDDEVQVVGGTYKGREGKFVQIFAI 31
+S + + EV ++GG + + G FV A
Sbjct: 58 LSEKPNIEVILLGGEVRPKTGSFVGPLAE 86
>gnl|CDD|180284 PRK05844, PRK05844, pyruvate flavodoxin oxidoreductase subunit
gamma; Validated.
Length = 186
Score = 24.3 bits (53), Expect = 7.7
Identities = 10/25 (40%), Positives = 12/25 (48%), Gaps = 5/25 (20%)
Query: 13 VVGGTYKGREGKFVQIFAIFSGVKR 37
V+ T GK VQ FA + KR
Sbjct: 24 VIAKT-----GKEVQAFAFYGSAKR 43
>gnl|CDD|143410 cd07091, ALDH_F1-2_Ald2-like, ALDH subfamily: ALDH families 1and 2,
including 10-formyltetrahydrofolate dehydrogenase,
NAD+-dependent retinal dehydrogenase 1 and related
proteins. ALDH subfamily which includes the
NAD+-dependent retinal dehydrogenase 1 (RALDH 1, ALDH1,
EC=1.2.1.36), also known as aldehyde dehydrogenase
family 1 member A1 (ALDH1A1), in humans, a
homotetrameric, cytosolic enzyme that catalyzes the
oxidation of retinaldehyde to retinoic acid. Human
ALDH1B1 and ALDH2 are also in this cluster; both are
mitochrondrial homotetramers which play important roles
in acetaldehyde oxidation; ALDH1B1 in response to UV
light exposure and ALDH2 during ethanol metabolism.
10-formyltetrahydrofolate dehydrogenase (FTHFDH,
EC=1.5.1.6), also known as aldehyde dehydrogenase family
1 member L1 (ALDH1L1), in humans, a multi-domain
homotetramer with an N-terminal formyl transferase
domain and a C-terminal ALDH domain. FTHFDH catalyzes an
NADP+-dependent dehydrogenase reaction resulting in the
conversion of 10-formyltetrahydrofolate to
tetrahydrofolate and CO2. Also included in this
subfamily is the Arabidosis aldehyde dehydrogenase
family 2 members B4 and B7 (EC=1.2.1.3), which are
mitochondrial, homotetramers that oxidize acetaldehyde
and glycolaldehyde, as well as, the Arabidosis
cytosolic, homotetramer ALDH2C4 (EC=1.2.1.3), an enzyme
involved in the oxidation of sinapalehyde and
coniferaldehyde. Also included is the AldA aldehyde
dehydrogenase of Aspergillus nidulans (locus AN0554),
the aldehyde dehydrogenase 2 (YMR170c, ALD5, EC=1.2.1.5)
of Saccharomyces cerevisiae, and other similar
sequences.
Length = 476
Score = 24.5 bits (54), Expect = 9.0
Identities = 14/37 (37%), Positives = 22/37 (59%), Gaps = 1/37 (2%)
Query: 13 VVGGTYKGREGKFVQIFAIFSGVKRDLVVSYEPIFDP 49
+ GG G +G F+Q +F+ VK D+ ++ E IF P
Sbjct: 351 LTGGERHGSKGYFIQP-TVFTDVKDDMKIAKEEIFGP 386
>gnl|CDD|224138 COG1217, TypA, Predicted membrane GTPase involved in stress
response [Signal transduction mechanisms].
Length = 603
Score = 24.5 bits (54), Expect = 9.2
Identities = 6/34 (17%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 4 SVRKDDEVQVVGGTYKGREGKFVQIFAIFSGVKR 37
+V+ + +V ++ G+ ++ F G++R
Sbjct: 230 TVKPNQQVALIKSDGTTENGRITKLLG-FLGLER 262
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
0.313 0.130 0.355
Gapped
Lambda K H
0.267 0.0941 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,142,105
Number of extensions: 326757
Number of successful extensions: 232
Number of sequences better than 10.0: 1
Number of HSP's gapped: 232
Number of HSP's successfully gapped: 39
Length of query: 86
Length of database: 10,937,602
Length adjustment: 54
Effective length of query: 32
Effective length of database: 8,542,486
Effective search space: 273359552
Effective search space used: 273359552
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 53 (23.8 bits)