RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17133
(116 letters)
>gnl|CDD|238121 cd00200, WD40, WD40 domain, found in a number of eukaryotic
proteins that cover a wide variety of functions
including adaptor/regulatory modules in signal
transduction, pre-mRNA processing and cytoskeleton
assembly; typically contains a GH dipeptide 11-24
residues from its N-terminus and the WD dipeptide at its
C-terminus and is 40 residues long, hence the name WD40;
between GH and WD lies a conserved core; serves as a
stable propeller-like platform to which proteins can
bind either stably or reversibly; forms a propeller-like
structure with several blades where each blade is
composed of a four-stranded anti-parallel b-sheet;
instances with few detectable copies are hypothesized to
form larger structures by dimerization; each WD40
sequence repeat forms the first three strands of one
blade and the last strand in the next blade; the last
C-terminal WD40 repeat completes the blade structure of
the first WD40 repeat to create the closed ring
propeller-structure; residues on the top and bottom
surface of the propeller are proposed to coordinate
interactions with other proteins and/or small ligands; 7
copies of the repeat are present in this alignment.
Length = 289
Score = 57.3 bits (139), Expect = 6e-11
Identities = 26/108 (24%), Positives = 47/108 (43%), Gaps = 7/108 (6%)
Query: 8 TSIDFVRDESTKMVTAFDNSACVLFDLETGKPVVRIDSSQFGVSGGGGINRVVCHPTLPL 67
+ D T + + + L+DLETG+ V + VS V P +
Sbjct: 55 RDVAASAD-GTYLASGSSDKTIRLWDLETGECVRTLTGHTSYVSS------VAFSPDGRI 107
Query: 68 TITAHDDRHIRFFDNVSGKLVHSMVAHLDAVTSLAVDPQGLYILSGTY 115
++ D+ I+ +D +GK + ++ H D V S+A P G ++ S +
Sbjct: 108 LSSSSRDKTIKVWDVETGKCLTTLRGHTDWVNSVAFSPDGTFVASSSQ 155
Score = 54.3 bits (131), Expect = 6e-10
Identities = 27/111 (24%), Positives = 45/111 (40%), Gaps = 9/111 (8%)
Query: 4 NGTPTSIDFVRDESTKMVTAFDNSACV-LFDLETGKPVVRIDSSQFGVSGGGGINRVVCH 62
S+ F V + + L+DL TGK V + G +N V
Sbjct: 135 TDWVNSVAF--SPDGTFVASSSQDGTIKLWDLRTGKCVATLTGHT------GEVNSVAFS 186
Query: 63 PTLPLTITAHDDRHIRFFDNVSGKLVHSMVAHLDAVTSLAVDPQGLYILSG 113
P +++ D I+ +D +GK + ++ H + V S+A P G + SG
Sbjct: 187 PDGEKLLSSSSDGTIKLWDLSTGKCLGTLRGHENGVNSVAFSPDGYLLASG 237
Score = 50.8 bits (122), Expect = 1e-08
Identities = 25/107 (23%), Positives = 47/107 (43%), Gaps = 7/107 (6%)
Query: 8 TSIDFVRDESTKMVTAFDNSACVLFDLETGKPVVRIDSSQFGVSGGGGINRVVCHPTLPL 67
+S+ F D + ++ + ++D+ETGK + + +N V P
Sbjct: 97 SSVAFSPDGRI-LSSSSRDKTIKVWDVETGKCLTTLRGHT------DWVNSVAFSPDGTF 149
Query: 68 TITAHDDRHIRFFDNVSGKLVHSMVAHLDAVTSLAVDPQGLYILSGT 114
++ D I+ +D +GK V ++ H V S+A P G +LS +
Sbjct: 150 VASSSQDGTIKLWDLRTGKCVATLTGHTGEVNSVAFSPDGEKLLSSS 196
Score = 47.3 bits (113), Expect = 2e-07
Identities = 31/106 (29%), Positives = 52/106 (49%), Gaps = 7/106 (6%)
Query: 8 TSIDFVRDESTKMVTAFDNSACVLFDLETGKPVVRIDSSQFGVSGGGGINRVVCHPTLPL 67
S+ F D K++++ + L+DL TGK + + + G+N V P L
Sbjct: 181 NSVAFSPDGE-KLLSSSSDGTIKLWDLSTGKCLGTLRGHE------NGVNSVAFSPDGYL 233
Query: 68 TITAHDDRHIRFFDNVSGKLVHSMVAHLDAVTSLAVDPQGLYILSG 113
+ +D IR +D +G+ V ++ H ++VTSLA P G + SG
Sbjct: 234 LASGSEDGTIRVWDLRTGECVQTLSGHTNSVTSLAWSPDGKRLASG 279
Score = 44.2 bits (105), Expect = 2e-06
Identities = 24/106 (22%), Positives = 42/106 (39%), Gaps = 7/106 (6%)
Query: 8 TSIDFVRDESTKMVTAFDNSACVLFDLETGKPVVRIDSSQFGVSGGGGINRVVCHPTLPL 67
T + F D + T + ++DLETG+ + G + V
Sbjct: 13 TCVAFSPD-GKLLATGSGDGTIKVWDLETGELLRT------LKGHTGPVRDVAASADGTY 65
Query: 68 TITAHDDRHIRFFDNVSGKLVHSMVAHLDAVTSLAVDPQGLYILSG 113
+ D+ IR +D +G+ V ++ H V+S+A P G + S
Sbjct: 66 LASGSSDKTIRLWDLETGECVRTLTGHTSYVSSVAFSPDGRILSSS 111
Score = 32.3 bits (74), Expect = 0.032
Identities = 18/60 (30%), Positives = 28/60 (46%)
Query: 54 GGINRVVCHPTLPLTITAHDDRHIRFFDNVSGKLVHSMVAHLDAVTSLAVDPQGLYILSG 113
GG+ V P L T D I+ +D +G+L+ ++ H V +A G Y+ SG
Sbjct: 10 GGVTCVAFSPDGKLLATGSGDGTIKVWDLETGELLRTLKGHTGPVRDVAASADGTYLASG 69
Score = 25.8 bits (57), Expect = 7.1
Identities = 10/62 (16%), Positives = 22/62 (35%), Gaps = 6/62 (9%)
Query: 20 MVTAFDNSACVLFDLETGKPVVRIDSSQFGVSGGGGINRVVCHPTLPLTITAHDDRHIRF 79
+ + ++ ++DL TG+ V + + + P + D IR
Sbjct: 234 LASGSEDGTIRVWDLRTGECVQTLSGHT------NSVTSLAWSPDGKRLASGSADGTIRI 287
Query: 80 FD 81
+D
Sbjct: 288 WD 289
Score = 25.4 bits (56), Expect = 7.3
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 94 HLDAVTSLAVDPQGLYILSGTY 115
H VT +A P G + +G+
Sbjct: 8 HTGGVTCVAFSPDGKLLATGSG 29
>gnl|CDD|225201 COG2319, COG2319, FOG: WD40 repeat [General function prediction
only].
Length = 466
Score = 40.5 bits (93), Expect = 7e-05
Identities = 26/113 (23%), Positives = 42/113 (37%), Gaps = 7/113 (6%)
Query: 4 NGTPTSIDFVRDESTKMVTAFDNSACVLFDLETGKPVVRIDSSQFGVSGGGGINRVVCHP 63
+S+ F D + + + L+DL TGK + S P
Sbjct: 198 TDPVSSLAFSPDGGLLIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVS------SFSP 251
Query: 64 TLPLTITAHDDRHIRFFDNVSG-KLVHSMVAHLDAVTSLAVDPQGLYILSGTY 115
L + D IR +D S L+ ++ H +V S+A P G + SG+
Sbjct: 252 DGSLLASGSSDGTIRLWDLRSSSSLLRTLSGHSSSVLSVAFSPDGKLLASGSS 304
Score = 33.1 bits (74), Expect = 0.021
Identities = 26/107 (24%), Positives = 43/107 (40%), Gaps = 7/107 (6%)
Query: 8 TSIDFVRDESTKMVTAFDNSACVLFDLETGKPVVRIDSSQFGVSGGGGINRVVCHPTLPL 67
TS+ F D + + L+DL TGKP+ + ++ + P L
Sbjct: 159 TSLAFSPDGKLLASGSSLDGTIKLWDLRTGKPLSTLAGH------TDPVSSLAFSPDGGL 212
Query: 68 TI-TAHDDRHIRFFDNVSGKLVHSMVAHLDAVTSLAVDPQGLYILSG 113
I + D IR +D +GKL+ S ++ + P G + SG
Sbjct: 213 LIASGSSDGTIRLWDLSTGKLLRSTLSGHSDSVVSSFSPDGSLLASG 259
>gnl|CDD|197651 smart00320, WD40, WD40 repeats. Note that these repeats are
permuted with respect to the structural repeats (blades)
of the beta propeller domain.
Length = 40
Score = 32.3 bits (74), Expect = 0.004
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 84 SGKLVHSMVAHLDAVTSLAVDPQGLYILSGTY 115
SG+L+ ++ H VTS+A P G Y+ SG+
Sbjct: 1 SGELLKTLKGHTGPVTSVAFSPDGKYLASGSD 32
Score = 25.4 bits (56), Expect = 1.8
Identities = 7/28 (25%), Positives = 11/28 (39%)
Query: 54 GGINRVVCHPTLPLTITAHDDRHIRFFD 81
G + V P + DD I+ +D
Sbjct: 13 GPVTSVAFSPDGKYLASGSDDGTIKLWD 40
>gnl|CDD|201208 pfam00400, WD40, WD domain, G-beta repeat.
Length = 39
Score = 31.6 bits (72), Expect = 0.008
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 85 GKLVHSMVAHLDAVTSLAVDPQGLYILSG 113
GKL+ ++ H VTS+A P G + SG
Sbjct: 1 GKLLRTLKGHTGPVTSVAFSPDGNLLASG 29
Score = 23.8 bits (52), Expect = 7.2
Identities = 8/28 (28%), Positives = 12/28 (42%)
Query: 54 GGINRVVCHPTLPLTITAHDDRHIRFFD 81
G + V P L + DD +R +D
Sbjct: 12 GPVTSVAFSPDGNLLASGSDDGTVRVWD 39
>gnl|CDD|202206 pfam02327, BChl_A, Bacteriochlorophyll A protein.
Bacteriochlorophyll A protein is involved in the energy
transfer system of green photosynthetic bacteria. The
protein forms a homotrimer, with each monomer unit
containing seven molecules of bacteriochlorophyll A.
Length = 357
Score = 29.2 bits (65), Expect = 0.44
Identities = 13/29 (44%), Positives = 20/29 (68%), Gaps = 2/29 (6%)
Query: 41 VRIDSSQFGVS--GGGGINRVVCHPTLPL 67
V++D + GVS GGG+ R++ HP +PL
Sbjct: 259 VKVDGNLPGVSRDAGGGLRRILNHPLIPL 287
>gnl|CDD|233987 TIGR02733, desat_CrtD, C-3',4' desaturase CrtD. Members of this
family are slr1293, a carotenoid biosynthesis protein
which was shown to be the C-3',4' desaturase (CrtD) of
myxoxanthophyll biosynthesis in Synechocystis sp. strain
PCC 6803, and close homologs (presumed to be
functionally equivalent) from other cyanobacteria, where
myxoxanthophyll biosynthesis is either known or
expected. This enzyme can act on neurosporene and so
presumably catalyzes the first step that is committed to
myxoxanthophyll [Biosynthesis of cofactors, prosthetic
groups, and carriers, Other].
Length = 492
Score = 28.5 bits (64), Expect = 0.70
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 15/68 (22%)
Query: 63 PTLPLTIT-------AHDDRHIRFFDNVSGKLVHSMV-----AHLDAVTSLAV--DPQGL 108
P LT+ DDR +R F ++ KL +S A L T L + P GL
Sbjct: 166 PLSLLTVADLLRLCGLGDDRRLRRFLDLQLKL-YSQEDADETAALYGATVLQMAQAPHGL 224
Query: 109 YILSGTYQ 116
+ L G+ Q
Sbjct: 225 WHLHGSMQ 232
>gnl|CDD|236433 PRK09259, PRK09259, putative oxalyl-CoA decarboxylase; Validated.
Length = 569
Score = 28.4 bits (64), Expect = 0.86
Identities = 17/36 (47%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 35 ETGKPVVRID-SSQFGVSGGGGINRVVCHPTLPLTI 69
ETGKPVV I+ S FG SG +C LP+T+
Sbjct: 439 ETGKPVVAIEGDSAFGFSGME--VETICRYNLPVTV 472
>gnl|CDD|222866 PHA02544, 44, clamp loader, small subunit; Provisional.
Length = 316
Score = 26.9 bits (60), Expect = 2.5
Identities = 15/44 (34%), Positives = 22/44 (50%), Gaps = 8/44 (18%)
Query: 1 MFYNGTPTSIDFVRDESTKMVTAFDNSACVLFDLETGKPVVRID 44
+F NG+ IDFVR+ +T F ++ L G V+ ID
Sbjct: 72 LFVNGSDCRIDFVRNR----LTRFASTV----SLTGGGKVIIID 107
>gnl|CDD|213247 cd03280, ABC_MutS2, ATP-binding cassette domain of MutS2. MutS2
homologs in bacteria and eukaryotes. The MutS protein
initiates DNA mismatch repair by recognizing mispaired
and unpaired bases embedded in duplex DNA and activating
endo- and exonucleases to remove the mismatch. Members
of the MutS family also possess a conserved ATPase
activity that belongs to the ATP binding cassette (ABC)
superfamily. MutS homologs (MSH) have been identified in
most prokaryotic and all eukaryotic organisms examined.
Prokaryotes have two homologs (MutS1 and MutS2), whereas
seven MSH proteins (MSH1 to MSH7) have been identified
in eukaryotes. The homodimer MutS1 and heterodimers
MSH2-MSH3 and MSH2-MSH6 are primarily involved in
mitotic mismatch repair, whereas MSH4-MSH5 is involved
in resolution of Holliday junctions during meiosis. All
members of the MutS family contain the highly conserved
Walker A/B ATPase domain, and many share a common
mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and
MSH4-MSH5 dimerize to form sliding clamps, and
recognition of specific DNA structures or lesions
results in ADP/ATP exchange.
Length = 200
Score = 26.8 bits (60), Expect = 2.6
Identities = 10/24 (41%), Positives = 12/24 (50%)
Query: 28 ACVLFDLETGKPVVRIDSSQFGVS 51
A + FD ET KP R+ G S
Sbjct: 166 ASMEFDPETLKPTYRLLIGVPGRS 189
>gnl|CDD|222482 pfam13970, DUF4221, Domain of unknown function (DUF4221). This
family of bacterial proteins contains highly conserved
asparagine and cysteine residues. The function is not
known.
Length = 310
Score = 26.9 bits (60), Expect = 2.6
Identities = 12/42 (28%), Positives = 17/42 (40%), Gaps = 4/42 (9%)
Query: 26 NSACVLFDLETGKPVVRIDSSQFGVSGGGGINRVV-CHPTLP 66
S ++DL+T K + RI F G GI + L
Sbjct: 45 TSNIEIYDLDTLKLIKRI---PFEKEGPNGIGKPFGFFQNLD 83
>gnl|CDD|132298 TIGR03254, oxalate_oxc, oxalyl-CoA decarboxylase. In a number of
bacteria, including Oxalobacter formigenes from the
human gut, a two-gene operon of oxc (oxalyl-CoA
decarboxylase) and frc (formyl-CoA transferase) encodes
a system for degrading and therefore detoxifying
oxalate. Members of this family are the thiamine
pyrophosphate (TPP)-containing enzyme oxalyl-CoA
decarboxylase [Cellular processes, Detoxification].
Length = 554
Score = 26.7 bits (59), Expect = 3.1
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 34 LETGKPVVRID-SSQFGVSGGGGINRVVCHPTLPLTI 69
+ETGKPVV ++ S FG SG +C LP+ +
Sbjct: 431 VETGKPVVALEGDSAFGFSGME--VETICRYNLPVCV 465
>gnl|CDD|235380 PRK05265, PRK05265, pyridoxine 5'-phosphate synthase;
Provisional.
Length = 239
Score = 26.2 bits (59), Expect = 3.9
Identities = 9/16 (56%), Positives = 9/16 (56%), Gaps = 3/16 (18%)
Query: 69 ITAH---DDRHIRFFD 81
IT H D RHIR D
Sbjct: 41 ITVHLREDRRHIRDRD 56
>gnl|CDD|223923 COG0854, PdxJ, Pyridoxal phosphate biosynthesis protein [Coenzyme
metabolism].
Length = 243
Score = 26.1 bits (58), Expect = 4.5
Identities = 8/16 (50%), Positives = 9/16 (56%), Gaps = 3/16 (18%)
Query: 69 ITAH---DDRHIRFFD 81
IT H D RHI+ D
Sbjct: 39 ITVHLREDRRHIQDRD 54
>gnl|CDD|215217 PLN02387, PLN02387, long-chain-fatty-acid-CoA ligase family
protein.
Length = 696
Score = 25.8 bits (57), Expect = 6.0
Identities = 17/46 (36%), Positives = 22/46 (47%)
Query: 7 PTSIDFVRDESTKMVTAFDNSACVLFDLETGKPVVRIDSSQFGVSG 52
P +D VRD K V A A LFD+ + + I+ S FG G
Sbjct: 355 PAILDRVRDGVRKKVDAKGGLAKKLFDIAYKRRLAAIEGSWFGAWG 400
>gnl|CDD|211788 TIGR03098, ligase_PEP_1, acyl-CoA ligase (AMP-forming), exosortase
A-associated. This group of proteins contains an
AMP-binding domain (pfam00501) associated with acyl
CoA-ligases. These proteins are generally found in
genomes containing the exosortase/PEP-CTERM protein
expoert system , specifically the type 1 variant of this
system described by the Genome Property GenProp0652.
When found in this context they are invariably present
next to a decarboxylase enzyme. A number of sequences
from Burkholderia species also hit this model, but the
genomic context is obviously different. The hypothesis
of a constant substrate for this family is only strong
where the exosortase context is present.
Length = 517
Score = 25.9 bits (57), Expect = 6.6
Identities = 6/36 (16%), Positives = 13/36 (36%)
Query: 67 LTITAHDDRHIRFFDNVSGKLVHSMVAHLDAVTSLA 102
L +R+ N G + + ++ L + A
Sbjct: 268 LDWPESAAPSLRYLTNSGGAMPRATLSRLRSFLPNA 303
>gnl|CDD|236878 PRK11193, PRK11193, hypothetical protein; Provisional.
Length = 172
Score = 25.6 bits (57), Expect = 6.7
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 87 LVHSMVAHLDAVTSLAVDPQGLYILSGT 114
V S+ + ++ S +D Q L +L G
Sbjct: 37 SVVSVDSDVEVSLSFGIDNQRLVVLKGK 64
>gnl|CDD|226100 COG3570, StrB, Streptomycin 6-kinase [Defense mechanisms].
Length = 274
Score = 25.6 bits (56), Expect = 7.0
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 85 GKLVHSMVAHLDAVTSLAVDPQGLY 109
G L H + D L +DP+GL
Sbjct: 166 GDLHHGNILDGDRRGWLVIDPKGLI 190
>gnl|CDD|131865 TIGR02818, adh_III_F_hyde, S-(hydroxymethyl)glutathione
dehydrogenase/class III alcohol dehydrogenase. The
members of this protein family show dual function.
First, they remove formaldehyde, a toxic metabolite, by
acting as S-(hydroxymethyl)glutathione dehydrogenase
(1.1.1.284). S-(hydroxymethyl)glutathione can form
spontaneously from formaldehyde and glutathione, and so
this enzyme previously was designated
glutathione-dependent formaldehyde dehydrogenase. These
same proteins are also designated alcohol dehydrogenase
(EC 1.1.1.1) of class III, for activities that do not
require glutathione; they tend to show poor activity for
ethanol among their various substrate alcohols [Cellular
processes, Detoxification, Energy metabolism,
Fermentation].
Length = 368
Score = 25.6 bits (56), Expect = 7.4
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 86 KLVHSMVAHLDAVTSLAVDPQGLY 109
++V + V H DA T DP+G++
Sbjct: 32 RIVATGVCHTDAFTLSGADPEGVF 55
>gnl|CDD|235831 PRK06559, PRK06559, nicotinate-nucleotide pyrophosphorylase;
Provisional.
Length = 290
Score = 25.3 bits (55), Expect = 8.1
Identities = 11/41 (26%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 17 STKMVTAFDNSACVLFDLETGKPVVRIDSSQFGVSGGGGIN 57
+ V A + +FD P +R+ ++ V GGG N
Sbjct: 122 TAAYVEALGDDRIKVFDTRKTTPNLRL-FEKYAVRVGGGYN 161
>gnl|CDD|234377 TIGR03866, PQQ_ABC_repeats, PQQ-dependent catabolism-associated
beta-propeller protein. Members of this protein family
consist of seven repeats each of the YVTN family
beta-propeller repeat (see TIGR02276). Members occur
invariably as part of a transport operon that is
associated with PQQ-dependent catabolism of alcohols
such as phenylethanol.
Length = 300
Score = 25.4 bits (56), Expect = 8.8
Identities = 13/46 (28%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 67 LTITAHDDRHIRFFDNVSGKLVHSMVAHLDAVTSLAVDPQG--LYI 110
L + A D ++ D +G+++H++ + D A+ P G LYI
Sbjct: 45 LYVCASDSDTVQVIDPATGEVLHTLPSGPDPEL-FALHPNGKILYI 89
>gnl|CDD|176260 cd08300, alcohol_DH_class_III, class III alcohol dehydrogenases.
Members identified as glutathione-dependent formaldehyde
dehydrogenase(FDH), a member of the zinc
dependent/medium chain alcohol dehydrogenase family.
FDH converts formaldehyde and NAD(P) to formate and
NAD(P)H. The initial step in this process the
spontaneous formation of a S-(hydroxymethyl)glutathione
adduct from formaldehyde and glutathione, followed by
FDH-mediated oxidation (and detoxification) of the
adduct to S-formylglutathione. MDH family uses NAD(H)
as a cofactor in the interconversion of alcohols and
aldehydes or ketones. Like many zinc-dependent alcohol
dehydrogenases (ADH) of the medium chain alcohol
dehydrogenase/reductase family (MDR), these FDHs form
dimers, with 4 zinc ions per dimer. The medium chain
alcohol dehydrogenase family (MDR) have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The N-terminal region typically has an
all-beta catalytic domain. These proteins typically form
dimers (typically higher plants, mammals) or tetramers
(yeast, bacteria), and have 2 tightly bound zinc atoms
per subunit. Alcohol dehydrogenase in the liver
converts ethanol and NAD+ to acetaldehyde and NADH,
while in yeast and some other microorganisms ADH
catalyzes the conversion acetaldehyde to ethanol in
alcoholic fermentation. ADH is a member of the medium
chain alcohol dehydrogenase family (MDR), which have a
NAD(P)(H)-binding domain in a Rossmann fold of a
beta-alpha form. The NAD(H)-binding region is comprised
of 2 structurally similar halves, each of which contacts
a mononucleotide. A GxGxxG motif after the first
mononucleotide contact half allows the close contact of
the coenzyme with the ADH backbone. The N-terminal
catalytic domain has a distant homology to GroES.
These proteins typically form dimers (typically higher
plants, mammals) or tetramers (yeast, bacteria), and
have 2 tightly bound zinc atoms per subunit, a catalytic
zinc at the active site and a structural zinc in a lobe
of the catalytic domain. NAD(H) binding occurs in the
cleft between the catalytic and coenzyme-binding
domains at the active site, and coenzyme binding induces
a conformational closing of this cleft. Coenzyme binding
typically precedes and contributes to substrate binding.
Length = 368
Score = 25.3 bits (56), Expect = 9.0
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 86 KLVHSMVAHLDAVTSLAVDPQGLY 109
K++ + V H DA T DP+GL+
Sbjct: 33 KILATGVCHTDAYTLSGADPEGLF 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
0.322 0.138 0.413
Gapped
Lambda K H
0.267 0.0728 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,908,486
Number of extensions: 501795
Number of successful extensions: 499
Number of sequences better than 10.0: 1
Number of HSP's gapped: 494
Number of HSP's successfully gapped: 38
Length of query: 116
Length of database: 10,937,602
Length adjustment: 79
Effective length of query: 37
Effective length of database: 7,433,636
Effective search space: 275044532
Effective search space used: 275044532
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (24.2 bits)