RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9645
(98 letters)
>gnl|CDD|214631 smart00350, MCM, minichromosome maintenance proteins.
Length = 509
Score = 133 bits (337), Expect = 1e-38
Identities = 43/65 (66%), Positives = 56/65 (86%)
Query: 32 EKHRVRGDINVLLCGDPGTAKSQFLKYMEKIGPRAIFTTGQGASAVGLTAYVGKHPTTKE 91
+ ++RGDIN+LLCGDPGTAKSQ LKY+EK PRA++TTG+G+SAVGLTA V + P T+E
Sbjct: 229 DGMKIRGDINILLCGDPGTAKSQLLKYVEKTAPRAVYTTGKGSSAVGLTAAVTRDPETRE 288
Query: 92 WTVEA 96
+T+EA
Sbjct: 289 FTLEA 293
>gnl|CDD|215947 pfam00493, MCM, MCM2/3/5 family.
Length = 327
Score = 129 bits (327), Expect = 3e-38
Identities = 42/65 (64%), Positives = 53/65 (81%)
Query: 32 EKHRVRGDINVLLCGDPGTAKSQFLKYMEKIGPRAIFTTGQGASAVGLTAYVGKHPTTKE 91
+ R+RGDINVLL GDPGTAKSQ LKY+ K+ PRA++T+G+G+SA GLTA V + P T E
Sbjct: 50 DGTRLRGDINVLLVGDPGTAKSQLLKYVAKLAPRAVYTSGKGSSAAGLTAAVVRDPDTGE 109
Query: 92 WTVEA 96
WT+EA
Sbjct: 110 WTLEA 114
>gnl|CDD|224162 COG1241, MCM2, Predicted ATPase involved in replication control,
Cdc46/Mcm family [DNA replication, recombination, and
repair].
Length = 682
Score = 112 bits (282), Expect = 2e-30
Identities = 40/76 (52%), Positives = 53/76 (69%), Gaps = 5/76 (6%)
Query: 26 QQAGASEK-----HRVRGDINVLLCGDPGTAKSQFLKYMEKIGPRAIFTTGQGASAVGLT 80
Q G +K R+RGDI++LL GDPGTAKSQ LKY+ K+ PR ++T+G+G+SA GLT
Sbjct: 301 QLFGGVKKNLPDGTRIRGDIHILLVGDPGTAKSQLLKYVAKLAPRGVYTSGKGSSAAGLT 360
Query: 81 AYVGKHPTTKEWTVEA 96
A V + T EW +EA
Sbjct: 361 AAVVRDKVTGEWVLEA 376
>gnl|CDD|173403 PTZ00111, PTZ00111, DNA replication licensing factor MCM4;
Provisional.
Length = 915
Score = 81.2 bits (200), Expect = 2e-19
Identities = 30/60 (50%), Positives = 40/60 (66%), Gaps = 1/60 (1%)
Query: 37 RGDINVLLCGDPGTAKSQFLKYMEKIGPRAIFTTGQGASAVGLTAYVG-KHPTTKEWTVE 95
RG INVLLCGDPGTAKSQ L Y + PR+I+T+G+ +S+VGLTA + ++
Sbjct: 490 RGIINVLLCGDPGTAKSQLLHYTHLLSPRSIYTSGKSSSSVGLTASIKFNESDNGRAMIQ 549
>gnl|CDD|226479 COG3970, COG3970, Fumarylacetoacetate (FAA) hydrolase family
protein [General function prediction only].
Length = 379
Score = 33.6 bits (77), Expect = 0.008
Identities = 25/91 (27%), Positives = 36/91 (39%), Gaps = 19/91 (20%)
Query: 5 RGRQRRTWMDDIKEWTNIPGNQQAGASEKHRVRGDINVLLCGDPGTAKSQFLKYME-KIG 63
R D+ +AG+ V+ + AK + +Y+E IG
Sbjct: 123 RIDLAEVIGSDLS-------YLEAGSDYAAEVKAKL---------IAKGLWSQYLEVGIG 166
Query: 64 PRA-IFTTGQGASAVGLTAYVGKHPTTKEWT 93
P A IFT Q S+VG A +G P + EW
Sbjct: 167 PDAEIFTKAQPMSSVGHGAQIGVRPDS-EWN 196
>gnl|CDD|233120 TIGR00764, lon_rel, lon-related putative ATP-dependent protease.
This model represents a set of proteins with extensive
C-terminal homology to the ATP-dependent protease La,
product of the lon gene of E. coli. The model is based
on a seed alignment containing only archaeal members,
but several bacterial proteins match the model well.
Because several species, including Thermotoga maritima
and Treponema pallidum, contain both a close homolog of
the lon protease and nearly full-length homolog of the
members of this family, we suggest there may also be a
functional division between the two families. Members
of this family from Pyrococcus horikoshii and
Pyrococcus abyssi each contain a predicted intein
[Protein fate, Degradation of proteins, peptides, and
glycopeptides].
Length = 608
Score = 32.5 bits (74), Expect = 0.023
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 41 NVLLCGDPGTAKSQFLKYMEKIGPRAIFT 69
NVLL G+PG KS K M ++ P
Sbjct: 39 NVLLIGEPGVGKSMLAKAMAELLPDEELE 67
>gnl|CDD|219538 pfam07728, AAA_5, AAA domain (dynein-related subfamily). This
Pfam entry includes some of the AAA proteins not
detected by the pfam00004 model.
Length = 135
Score = 29.2 bits (66), Expect = 0.21
Identities = 11/30 (36%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 41 NVLLCGDPGTAKSQFLKYM-EKIGPRAIFT 69
VLL G PGT KS+ + + + R +F
Sbjct: 1 GVLLVGPPGTGKSELAERLAAALSNRPVFY 30
>gnl|CDD|226132 COG3604, FhlA, Transcriptional regulator containing GAF, AAA-type
ATPase, and DNA binding domains [Transcription / Signal
transduction mechanisms].
Length = 550
Score = 29.2 bits (66), Expect = 0.24
Identities = 12/75 (16%), Positives = 22/75 (29%), Gaps = 15/75 (20%)
Query: 7 RQRRTWMDDIKEWTNIPGNQQA------GASEKHR---------VRGDINVLLCGDPGTA 51
+ ++ G S R + D VL+ G+ GT
Sbjct: 199 SLKERLEEENLALEEQLSEVVLEVGGIIGRSPAMRQLLKEIEVVAKSDSTVLIRGETGTG 258
Query: 52 KSQFLKYMEKIGPRA 66
K + + ++ PR
Sbjct: 259 KELVARAIHQLSPRR 273
>gnl|CDD|237495 PRK13765, PRK13765, ATP-dependent protease Lon; Provisional.
Length = 637
Score = 28.8 bits (65), Expect = 0.39
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 41 NVLLCGDPGTAKSQFLKYMEKIGPR 65
+V++ G PGT KS K M ++ P+
Sbjct: 52 HVMMIGSPGTGKSMLAKAMAELLPK 76
>gnl|CDD|206680 cd01893, Miro1, Mitochondrial Rho family 1 (Miro1), N-terminal.
Miro1 subfamily. Miro (mitochondrial Rho) proteins have
tandem GTP-binding domains separated by a linker region
containing putative calcium-binding EF hand motifs.
Genes encoding Miro-like proteins were found in several
eukaryotic organisms. This CD represents the N-terminal
GTPase domain of Miro proteins. These atypical Rho
GTPases have roles in mitochondrial homeostasis and
apoptosis. Most Rho proteins contain a lipid
modification site at the C-terminus; however, Miro is
one of few Rho subfamilies that lack this feature.
Length = 168
Score = 28.5 bits (64), Expect = 0.44
Identities = 7/15 (46%), Positives = 10/15 (66%)
Query: 39 DINVLLCGDPGTAKS 53
D+ ++L GD G KS
Sbjct: 2 DVRIVLIGDEGVGKS 16
>gnl|CDD|226350 COG3829, RocR, Transcriptional regulator containing PAS, AAA-type
ATPase, and DNA-binding domains [Transcription / Signal
transduction mechanisms].
Length = 560
Score = 27.7 bits (62), Expect = 0.90
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 39 DINVLLCGDPGTAKSQFLKYMEKIGPRA 66
D VL+ G+ GT K F + + + PRA
Sbjct: 268 DSTVLILGESGTGKELFARAIHNLSPRA 295
>gnl|CDD|225822 COG3284, AcoR, Transcriptional activator of acetoin/glycerol
metabolism [Secondary metabolites biosynthesis,
transport, and catabolism / Transcription].
Length = 606
Score = 27.7 bits (62), Expect = 1.0
Identities = 9/28 (32%), Positives = 14/28 (50%)
Query: 39 DINVLLCGDPGTAKSQFLKYMEKIGPRA 66
D+ VLL G+ GT K + + + A
Sbjct: 336 DLPVLLQGETGTGKEVLARAIHQNSEAA 363
>gnl|CDD|219856 pfam08477, Miro, Miro-like protein. Mitochondrial Rho proteins
(Miro-1, and Miro-2), are atypical Rho GTPases. They
have a unique domain organisation, with tandem
GTP-binding domains and two EF hand domains
(pfam00036), that may bind calcium. They are also
larger than classical small GTPases. It has been
proposed that they are involved in mitochondrial
homeostasis and apoptosis.
Length = 116
Score = 27.0 bits (60), Expect = 1.1
Identities = 7/19 (36%), Positives = 11/19 (57%)
Query: 41 NVLLCGDPGTAKSQFLKYM 59
V++ GD G+ KS L +
Sbjct: 1 KVVVIGDKGSGKSSLLSQL 19
>gnl|CDD|129690 TIGR00602, rad24, checkpoint protein rad24. All proteins in this
family for which functions are known are involved in DNA
damage tolerance (likely cell cycle checkpoints).This
family is based on the phylogenomic analysis of JA Eisen
(1999, Ph.D. Thesis, Stanford University) [DNA
metabolism, DNA replication, recombination, and repair].
Length = 637
Score = 27.2 bits (60), Expect = 1.2
Identities = 10/50 (20%), Positives = 21/50 (42%), Gaps = 9/50 (18%)
Query: 13 MDDIKEWTNIPGNQQAGASEKHRVRGDINVLLCGDPGTAKSQFLKYMEKI 62
+++++ W Q + R+ +L+ G G KS +K + K
Sbjct: 93 IEEVETWLK----AQVLENAPKRI-----LLITGPSGCGKSTTIKILSKE 133
>gnl|CDD|224996 COG2085, COG2085, Predicted dinucleotide-binding enzymes [General
function prediction only].
Length = 211
Score = 27.3 bits (61), Expect = 1.3
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 37 RGDINVLLCGDPGTAKSQFLKYMEKIGPRAI 67
G +VL+ GD AK+ + E IG R +
Sbjct: 146 GGRRDVLVAGDDAEAKAVVAELAEDIGFRPL 176
>gnl|CDD|213200 cd03233, ABCG_PDR_domain1, First domain of the pleiotropic drug
resistance-like subfamily G of ATP-binding cassette
transporters. The pleiotropic drug resistance (PDR) is
a well-described phenomenon occurring in fungi and
shares several similarities with processes in bacteria
and higher eukaryotes. This PDR subfamily represents
domain I of its (ABC-IM)2 organization. ABC
transporters are a large family of proteins involved in
the transport of a wide variety of different compounds
including sugars, ions, peptides, and more complex
organic molecules. The nucleotide-binding domain shows
the highest similarity between all members of the
family. ABC transporters are a subset of nucleotide
hydrolases that contain a signature motif, Q-loop, and
H-loop/switch region, in addition to, the Walker A
motif/P-loop and Walker B motif commonly found in a
number of ATP- and GTP-binding and hydrolyzing
proteins.
Length = 202
Score = 26.8 bits (60), Expect = 1.7
Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 9/47 (19%)
Query: 19 WTNIPGNQQAGASEKHRVRGDIN--------VLLCGDPGTAKSQFLK 57
W NI G S+ ++ D + VL+ G PG+ S LK
Sbjct: 6 WRNISFTTGKGRSKIPILK-DFSGVVKPGEMVLVLGRPGSGCSTLLK 51
>gnl|CDD|220739 pfam10412, TrwB_AAD_bind, Type IV secretion-system coupling
protein DNA-binding domain. The plasmid conjugative
coupling protein TrwB forms hexamers from six
structurally very similar protomers. This hexamer
contains a central channel running from the cytosolic
pole (made up by the AADs) to the membrane pole ending
at the transmembrane pore shaped by 12 transmembrane
helices, rendering an overall mushroom-like structure.
The TrwB_AAD (all-alpha domain) domain appears to be
the DNA-binding domain of the structure. TrwB, a basic
integral inner-membrane nucleoside-triphosphate-binding
protein, is the structural prototype for the type IV
secretion system coupling proteins, a family of
proteins essential for macromolecular transport between
cells and export.
Length = 386
Score = 26.8 bits (60), Expect = 1.9
Identities = 11/31 (35%), Positives = 16/31 (51%), Gaps = 4/31 (12%)
Query: 41 NVLLCGDPGTAKSQ----FLKYMEKIGPRAI 67
++L+ G GT K+Q L + G RAI
Sbjct: 17 HILIVGTTGTGKTQALRELLDQIRARGDRAI 47
>gnl|CDD|217429 pfam03215, Rad17, Rad17 cell cycle checkpoint protein.
Length = 490
Score = 26.9 bits (59), Expect = 1.9
Identities = 11/48 (22%), Positives = 17/48 (35%), Gaps = 9/48 (18%)
Query: 15 DIKEWTNIPGNQQAGASEKHRVRGDINVLLCGDPGTAKSQFLKYMEKI 62
++ W S K + +LL G G KS +K + K
Sbjct: 30 EVDHWLK----AVFLESNKQLI-----LLLTGPSGCGKSTTVKVLSKE 68
>gnl|CDD|221803 pfam12846, AAA_10, AAA-like domain. This family of domains
contain a P-loop motif that is characteristic of the
AAA superfamily. Many of the proteins in this family
are conjugative transfer proteins.
Length = 316
Score = 26.6 bits (59), Expect = 2.3
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 41 NVLLCGDPGTAKSQFLKYM 59
N+L+ G G+ KS LK +
Sbjct: 3 NMLIVGPSGSGKSTLLKLL 21
>gnl|CDD|129465 TIGR00368, TIGR00368, Mg chelatase-related protein. The N-terminal
end matches very strongly a pfam Mg_chelatase domain
[Unknown function, General].
Length = 499
Score = 26.3 bits (58), Expect = 2.6
Identities = 14/45 (31%), Positives = 22/45 (48%)
Query: 20 TNIPGNQQAGASEKHRVRGDINVLLCGDPGTAKSQFLKYMEKIGP 64
+I G Q A + + G N+LL G PG+ K+ ++ I P
Sbjct: 192 KDIKGQQHAKRALEIAAAGGHNLLLFGPPGSGKTMLASRLQGILP 236
>gnl|CDD|215758 pfam00158, Sigma54_activat, Sigma-54 interaction domain.
Length = 168
Score = 26.2 bits (59), Expect = 2.6
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 39 DINVLLCGDPGTAKSQFLKYMEKIGPRA 66
D VL+ G+ GT K F + + ++ PRA
Sbjct: 22 DATVLITGESGTGKELFARAIHQLSPRA 49
>gnl|CDD|235281 PRK04328, PRK04328, hypothetical protein; Provisional.
Length = 249
Score = 26.2 bits (58), Expect = 2.7
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 4/33 (12%)
Query: 42 VLLCGDPGTAKS----QFLKYMEKIGPRAIFTT 70
VLL G PGT KS QFL ++G ++
Sbjct: 26 VLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA 58
>gnl|CDD|184675 PRK14426, PRK14426, acylphosphatase; Provisional.
Length = 92
Score = 25.4 bits (56), Expect = 3.0
Identities = 7/28 (25%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 38 GDINVLLCGDPGTAKSQFLKYMEKIGPR 65
G + V+ CG+ + ++++++ GPR
Sbjct: 42 GSVEVVACGEEE-QVEKLMEWLKEGGPR 68
>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular
activities. AAA - ATPases associated with a variety of
cellular activities. This profile/alignment only
detects a fraction of this vast family. The poorly
conserved N-terminal helix is missing from the
alignment.
Length = 148
Score = 25.8 bits (56), Expect = 3.2
Identities = 5/17 (29%), Positives = 10/17 (58%)
Query: 41 NVLLCGDPGTAKSQFLK 57
+L+ G PG+ K+ +
Sbjct: 4 VILIVGPPGSGKTTLAR 20
>gnl|CDD|219158 pfam06745, KaiC, KaiC. This family represents a conserved region
within bacterial and archaeal proteins, most of which
are hypothetical. More than one copy is sometimes found
in each protein. This family includes KaiC, which is
one of the Kai proteins among which direct
protein-protein association may be a critical process
in the generation of circadian rhythms in
cyanobacteria.
Length = 231
Score = 25.7 bits (57), Expect = 4.1
Identities = 12/35 (34%), Positives = 17/35 (48%), Gaps = 5/35 (14%)
Query: 41 NVLLCGDPGTAKS----QFL-KYMEKIGPRAIFTT 70
VL+ G PGT K+ QFL + G ++ T
Sbjct: 21 VVLITGGPGTGKTIFGLQFLYNGALEYGEPGVYVT 55
>gnl|CDD|102357 PRK06395, PRK06395, phosphoribosylamine--glycine ligase;
Provisional.
Length = 435
Score = 25.6 bits (56), Expect = 4.6
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 32 EKHRVRGDINVLLCGDPGTAKSQFLKYMEKIGPRAI-FTTGQGASAVG 78
E+H + G+IN C A ++ M+ + + I T G+G G
Sbjct: 114 ERHNIPGNINFNACFSEKDAARDYITSMKDVAVKPIGLTGGKGVKVTG 161
>gnl|CDD|107361 cd06366, PBP1_GABAb_receptor, Ligand-binding domain of GABAb
receptors, which are metabotropic transmembrane
receptors for gamma-aminobutyric acid (GABA).
Ligand-binding domain of GABAb receptors, which are
metabotropic transmembrane receptors for
gamma-aminobutyric acid (GABA). GABA is the major
inhibitory neurotransmitter in the mammalian CNS and,
like glutamate and other transmitters, acts via both
ligand gated ion channels (GABAa receptors) and
G-protein coupled receptors (GABAb). GABAa receptors
are members of the ionotropic receptor superfamily
which includes alpha-adrenergic and glycine receptors.
The GABAb receptor is a member of a receptor
superfamily which includes the mGlu receptors. The
GABAb receptor is coupled to G alpha_i proteins, and
activation causes a decrease in calcium, an increase in
potassium membrane conductance, and inhibition of cAMP
formation. The response is thus inhibitory and leads to
hyperpolarization and decreased neurotransmitter
release, for example.
Length = 350
Score = 25.7 bits (57), Expect = 4.8
Identities = 13/42 (30%), Positives = 15/42 (35%), Gaps = 3/42 (7%)
Query: 46 GDPGTAKSQFLKYMEKIGPRAIFTTGQGASAVG-LTAYVGKH 86
DP A S L +E AI G S+V A V
Sbjct: 49 CDPVQAASAALDLLENKPVVAII--GPQCSSVAEFVAEVANE 88
>gnl|CDD|130679 TIGR01618, phage_P_loop, phage nucleotide-binding protein. This
model represents an uncharacterized family of proteins
from a number of phage of Gram-positive bacteria. This
protein contains a P-loop motif, G/A-X-X-G-X-G-K-T near
its amino end. The function of this protein is unknown
[Mobile and extrachromosomal element functions,
Prophage functions].
Length = 220
Score = 25.5 bits (56), Expect = 5.0
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 37 RGDINVLLCGDPGTAKSQFLKYME 60
R L+ G PGT K+ +KY+
Sbjct: 10 RIPNMYLIYGKPGTGKTSTIKYLP 33
>gnl|CDD|238544 cd01124, KaiC, KaiC is a circadian clock protein primarily found
in cyanobacteria KaiC is a RecA-like ATPase, having
both Walker A and Walker B motifs. A related protein is
found in archaea.
Length = 187
Score = 25.4 bits (56), Expect = 5.2
Identities = 11/34 (32%), Positives = 18/34 (52%), Gaps = 4/34 (11%)
Query: 41 NVLLCGDPGTAKSQF-LKYMEK---IGPRAIFTT 70
+ LL G PGT K+ F L+++ G ++ T
Sbjct: 1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT 34
>gnl|CDD|206746 cd01849, YlqF_related_GTPase, Circularly permuted YlqF-related
GTPases. These proteins are found in bacteria,
eukaryotes, and archaea. They all exhibit a circular
permutation of the GTPase signature motifs so that the
order of the conserved G box motifs is G4-G5-G1-G2-G3,
with G4 and G5 being permuted from the C-terminal region
of proteins in the Ras superfamily to the N-terminus of
YlqF-related GTPases.
Length = 146
Score = 25.0 bits (55), Expect = 5.7
Identities = 16/63 (25%), Positives = 23/63 (36%), Gaps = 10/63 (15%)
Query: 20 TNIPGNQQAGA-----SEKHRVRGDINVLLCGDPGTAKSQFLKYM-----EKIGPRAIFT 69
TN G + A K + + I V + G P KS F+ + K+G T
Sbjct: 67 TNGQGILKLKAEITKQKLKLKYKKGIRVGVVGLPNVGKSSFINALLNKFKLKVGSIPGTT 126
Query: 70 TGQ 72
Q
Sbjct: 127 KLQ 129
>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of
cellular Activities) superfamily represents an ancient
group of ATPases belonging to the ASCE (for additional
strand, catalytic E) division of the P-loop NTPase
fold. The ASCE division also includes ABC, RecA-like,
VirD4-like, PilT-like, and SF1/2 helicases. Members of
the AAA+ ATPases function as molecular chaperons,
ATPase subunits of proteases, helicases, or
nucleic-acid stimulated ATPases. The AAA+ proteins
contain several distinct features in addition to the
conserved alpha-beta-alpha core domain structure and
the Walker A and B motifs of the P-loop NTPases.
Length = 151
Score = 25.2 bits (55), Expect = 5.8
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 2/33 (6%)
Query: 23 PGNQQAGASEKHRVRGDI--NVLLCGDPGTAKS 53
G ++A + + + N+LL G PGT K+
Sbjct: 1 VGQEEAIEALREALELPPPKNLLLYGPPGTGKT 33
>gnl|CDD|180743 PRK06912, acoL, dihydrolipoamide dehydrogenase; Validated.
Length = 458
Score = 25.4 bits (56), Expect = 6.0
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 7/42 (16%)
Query: 62 IGPRAIFTTGQGASAVG--LTA-----YVGKHPTTKEWTVEA 96
IGPRA GQG + +TA ++ HPT E EA
Sbjct: 406 IGPRATELIGQGTVMIHTEVTADIMEDFIAAHPTLSEAIHEA 447
>gnl|CDD|163589 TIGR03877, thermo_KaiC_1, KaiC domain protein, Ph0284 family.
Members of this family contain a single copy of the
KaiC domain (pfam06745) that occurs in two copies of
the circadian clock protein kinase KaiC itself. Members
occur primarily in thermophilic archaea and in
Thermotoga.
Length = 237
Score = 25.1 bits (55), Expect = 6.2
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 4/33 (12%)
Query: 42 VLLCGDPGTAKS----QFLKYMEKIGPRAIFTT 70
VLL G PGT KS QFL ++G I+
Sbjct: 24 VLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA 56
>gnl|CDD|187678 cd09620, CBM9_like_3, DOMON-like type 9 carbohydrate binding
module. Family 9 carbohydrate-binding modules (CBM9)
play a role in the microbial degradation of cellulose
and hemicellulose (materials found in plants). The
domain has previously been called cellulose-binding
domain. The polysaccharide binding sites of CBMs with
available 3D structure have been found to be either flat
surfaces with interactions formed by predominantly
aromatic residues (tryptophan and tyrosine), or extended
shallow grooves. CBM9 domains found in this
uncharacterized heterogeneous subfamily may co-occur
with various other domains.
Length = 200
Score = 25.0 bits (55), Expect = 6.5
Identities = 9/24 (37%), Positives = 11/24 (45%)
Query: 75 SAVGLTAYVGKHPTTKEWTVEADI 98
SAV + + K WTVE I
Sbjct: 122 SAVSIDGTLNDSDGDKGWTVELAI 145
>gnl|CDD|233418 TIGR01448, recD_rel, helicase, putative, RecD/TraA family. This
model describes a family similar to RecD, the
exodeoxyribonuclease V alpha chain of TIGR01447. Members
of this family, however, are not found in a context of
RecB and RecC and are longer by about 200 amino acids at
the amino end. Chlamydia muridarum has both a member of
this family and a RecD [Unknown function, Enzymes of
unknown specificity].
Length = 720
Score = 25.1 bits (55), Expect = 7.7
Identities = 17/77 (22%), Positives = 29/77 (37%), Gaps = 10/77 (12%)
Query: 14 DDIKEWTNIPGNQQAGASEKHR-----VRGDINVLLCGDPGTAKSQFLKYMEKIGPRAIF 68
+D + + + G SE+ + V+L G PGT K+ + + +
Sbjct: 308 NDQEHIWEVEKKLRKGLSEEQKQALDTAIQHKVVILTGGPGTGKTTITRAI-----IELA 362
Query: 69 TTGQGASAVGLTAYVGK 85
G VGL A G+
Sbjct: 363 EELGGLLPVGLAAPTGR 379
>gnl|CDD|236982 PRK11784, PRK11784, tRNA 2-selenouridine synthase; Provisional.
Length = 345
Score = 24.8 bits (55), Expect = 8.1
Identities = 7/26 (26%), Positives = 16/26 (61%)
Query: 42 VLLCGDPGTAKSQFLKYMEKIGPRAI 67
V+L G+ G+ K++ L+ + G + +
Sbjct: 144 VVLGGNTGSGKTELLQALANAGAQVL 169
>gnl|CDD|148986 pfam07682, SOR, Sulphur oxygenase reductase. The sulphur
oxygenase/reductase (SOR) of the thermo-acidophilic
archaeon Acidianus ambivalens is an unusual enzyme
consisting of 24 identical subunits arranged in a
perfectly symmetrical hollow sphere and containing a
mononuclear non-heme iron centre (personal
communication: A. Kletzin). At 85 degrees C in vitro,
elemental sulphur is oxidized to sulphite, thiosulphate
and hydrogen sulphide with no external cofactors
needed. The proposed equation is: 4S + O2 + 4 H2O --->
2 HSO3- + 2 H2S + 2 H+.
Length = 303
Score = 24.8 bits (54), Expect = 8.5
Identities = 8/41 (19%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 54 QFLKYMEKIGPRAIFTTGQGASAVGLTAYV--GKHPTTKEW 92
+ + +GP+ T + VG +V G P + +
Sbjct: 17 KTFELFSAVGPKVCMVTARHPGFVGFQNHVQIGVLPLGERF 57
>gnl|CDD|144608 pfam01078, Mg_chelatase, Magnesium chelatase, subunit ChlI.
Magnesium-chelatase is a three-component enzyme that
catalyzes the insertion of Mg2+ into protoporphyrin IX.
This is the first unique step in the synthesis of
(bacterio)chlorophyll. Due to this, it is thought that
Mg-chelatase has an important role in channelling
inter- mediates into the (bacterio)chlorophyll branch
in response to conditions suitable for photosynthetic
growth. ChlI and BchD have molecular weight between
38-42 kDa.
Length = 207
Score = 24.8 bits (55), Expect = 8.6
Identities = 6/13 (46%), Positives = 10/13 (76%)
Query: 41 NVLLCGDPGTAKS 53
N+L+ G PG+ K+
Sbjct: 24 NLLMIGPPGSGKT 36
>gnl|CDD|224160 COG1239, ChlI, Mg-chelatase subunit ChlI [Coenzyme metabolism].
Length = 423
Score = 24.7 bits (54), Expect = 9.2
Identities = 7/17 (41%), Positives = 10/17 (58%)
Query: 41 NVLLCGDPGTAKSQFLK 57
L+ G+ GTAKS +
Sbjct: 40 GALIAGEKGTAKSTLAR 56
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
0.316 0.133 0.411
Gapped
Lambda K H
0.267 0.0534 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,962,516
Number of extensions: 391500
Number of successful extensions: 477
Number of sequences better than 10.0: 1
Number of HSP's gapped: 477
Number of HSP's successfully gapped: 51
Length of query: 98
Length of database: 10,937,602
Length adjustment: 64
Effective length of query: 34
Effective length of database: 8,098,946
Effective search space: 275364164
Effective search space used: 275364164
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 (21.6 bits)
S2: 53 (24.6 bits)