RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9698
(123 letters)
>gnl|CDD|219541 pfam07731, Cu-oxidase_2, Multicopper oxidase. This entry contains
many divergent copper oxidase-like domains that are not
recognised by the pfam00394 model.
Length = 135
Score = 64.0 bits (156), Expect = 3e-14
Identities = 21/49 (42%), Positives = 27/49 (55%)
Query: 40 PIVKDTVGNLPSGYTVVRVHFNNPGMWYFHCHFVMHTDTGMTLVFQVGD 88
P+ +DTV P G+ +R +NPG W FHCH + H D GM F V
Sbjct: 85 PVRRDTVQVPPGGWVAIRFKADNPGPWLFHCHILWHLDQGMMGQFVVDP 133
>gnl|CDD|234194 TIGR03389, laccase, laccase, plant. Members of this protein family
include the copper-containing enzyme laccase (EC
1.10.3.2), often several from a single plant species,
and additional, uncharacterized, closely related plant
proteins termed laccase-like multicopper oxidases. This
protein family shows considerable sequence similarity to
the L-ascorbate oxidase (EC 1.10.3.3) family. Laccases
are enzymes of rather broad specificity, and
classification of all proteins scoring about the trusted
cutoff of this model as laccases may be appropriate.
Length = 539
Score = 55.5 bits (134), Expect = 3e-10
Identities = 24/67 (35%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 40 PIVKDTVGNLPSGYTVVRVHFNNPGMWYFHCHFVMHTDTGMTLVFQVGDRK---QFVRAP 96
P ++TVG G+ +R +NPG+W+ HCH +HT G+ + F V + K Q + P
Sbjct: 473 PPERNTVGVPTGGWAAIRFVADNPGVWFMHCHLEVHTTWGLKMAFLVDNGKGPNQSLLPP 532
Query: 97 PH-FPQC 102
P P C
Sbjct: 533 PSDLPSC 539
>gnl|CDD|215324 PLN02604, PLN02604, oxidoreductase.
Length = 566
Score = 54.5 bits (131), Expect = 8e-10
Identities = 23/48 (47%), Positives = 31/48 (64%)
Query: 40 PIVKDTVGNLPSGYTVVRVHFNNPGMWYFHCHFVMHTDTGMTLVFQVG 87
PI+K+TV P G+T +R +NPG+W FHCH H GM +VF+ G
Sbjct: 500 PIMKNTVPVHPYGWTALRFRADNPGVWAFHCHIESHFFMGMGVVFEEG 547
>gnl|CDD|234193 TIGR03388, ascorbase, L-ascorbate oxidase, plant type. Members of
this protein family are the copper-containing enzyme
L-ascorbate oxidase (EC 1.10.3.3), also called
ascorbase. This family is found in flowering plants, and
shows greater sequence similarity to a family of
laccases (EC 1.10.3.2) from plants than to other known
ascorbate oxidases.
Length = 541
Score = 53.2 bits (128), Expect = 3e-09
Identities = 21/49 (42%), Positives = 29/49 (59%)
Query: 39 RPIVKDTVGNLPSGYTVVRVHFNNPGMWYFHCHFVMHTDTGMTLVFQVG 87
P +++TV P G+T +R +NPG+W FHCH H GM +VF G
Sbjct: 476 NPPLRNTVVIFPYGWTALRFVADNPGVWAFHCHIEPHLHMGMGVVFAEG 524
>gnl|CDD|225043 COG2132, SufI, Putative multicopper oxidases [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 451
Score = 50.6 bits (121), Expect = 2e-08
Identities = 21/50 (42%), Positives = 24/50 (48%)
Query: 39 RPIVKDTVGNLPSGYTVVRVHFNNPGMWYFHCHFVMHTDTGMTLVFQVGD 88
P KDTV P +VR + PG W FHCH + H D GM F V
Sbjct: 401 APGWKDTVLVAPGERLLVRFDADYPGPWMFHCHILEHEDNGMMGQFGVVP 450
>gnl|CDD|177843 PLN02191, PLN02191, L-ascorbate oxidase.
Length = 574
Score = 49.6 bits (118), Expect = 4e-08
Identities = 20/48 (41%), Positives = 29/48 (60%)
Query: 40 PIVKDTVGNLPSGYTVVRVHFNNPGMWYFHCHFVMHTDTGMTLVFQVG 87
P +++T P G+T +R +NPG+W+FHCH H GM +VF G
Sbjct: 500 PPLRNTAILYPYGWTAIRFVTDNPGVWFFHCHIEPHLHMGMGVVFAEG 547
>gnl|CDD|132431 TIGR03390, ascorbOXfungal, L-ascorbate oxidase, fungal type. This
model describes a family of fungal ascorbate oxidases,
within a larger family of multicopper oxidases that also
includes plant ascorbate oxidases (TIGR03388), plant
laccases and laccase-like proteins (TIGR03389), and
related proteins. The member from Acremonium sp. HI-25
is characterized.
Length = 538
Score = 47.9 bits (114), Expect = 2e-07
Identities = 22/72 (30%), Positives = 33/72 (45%), Gaps = 12/72 (16%)
Query: 32 RLRTTQPRPIVKDT----------VGNLPSGYTVVRVHFNNPGMWYFHCHFVMHTDTGMT 81
+L P +++DT V P+G+ R+ NPG+W HCH + H GM
Sbjct: 469 KLENYTP--VLRDTTMLYRYAVKVVPGAPAGWRAWRIRVTNPGVWMMHCHILQHMVMGMQ 526
Query: 82 LVFQVGDRKQFV 93
V+ GD + V
Sbjct: 527 TVWVFGDAEDIV 538
>gnl|CDD|236810 PRK10965, PRK10965, multicopper oxidase; Provisional.
Length = 523
Score = 40.4 bits (95), Expect = 6e-05
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 5/48 (10%)
Query: 43 KDTVGNLPSGYTVVRVHFNNPG----MWYFHCHFVMHTDTGMTLVFQV 86
KDTV + G + V V F++ + HCH + H DTGM L F V
Sbjct: 476 KDTV-RVEGGRSEVLVKFDHDAPKEHAYMAHCHLLEHEDTGMMLGFTV 522
>gnl|CDD|233432 TIGR01480, copper_res_A, copper-resistance protein, CopA family.
This model represents the CopA copper resistance protein
family. CopA is related to laccase (benzenediol:oxygen
oxidoreductase) and L-ascorbate oxidase, both
copper-containing enzymes. Most members have a typical
TAT (twin-arginine translocation) signal sequence with
an Arg-Arg pair. Twin-arginine translocation is observed
for a large number of periplasmic proteins that cross
the inner membrane with metal-containing cofactors
already bound. The combination of copper-binding sites
and TAT translocation motif suggests a mechansism of
resistance by packaging and export [Cellular processes,
Detoxification, Transport and binding proteins, Cations
and iron carrying compounds].
Length = 587
Score = 39.5 bits (92), Expect = 2e-04
Identities = 18/50 (36%), Positives = 23/50 (46%), Gaps = 3/50 (6%)
Query: 37 QPRPIVKDTVGNLPSGYTVVRVHFNNPGMWYFHCHFVMHTDTGMTLVFQV 86
Q R K TV P G RV + G W +HCH ++H + GM V
Sbjct: 540 QVR---KHTVDVPPGGKRSFRVTADALGRWAYHCHMLLHMEAGMFREVTV 586
>gnl|CDD|130810 TIGR01749, fabA, beta-hydroxyacyl-[acyl carrier protein]
dehydratase FabA. This enzyme, FabA, shows overlapping
substrate specificity with FabZ with regard to chain
length in fatty acid biosynthesis. It is commonly
designated 3-hydroxydecanoyl-[acyl-carrier-protein]
dehydratase (EC 4.2.1.60) as if it were specific for
that chain length, but its specificity is broader; it
is active even in the initiation of fatty acid
biosynthesis. This enzyme can also isomerize
trans-2-decenoyl-ACP to cis-3-decenoyl-ACP to bypass
reduction by FabI and instead allow biosynthesis of
unsaturated fatty acids. FabA cannot elongate
unsaturated fatty acids [Fatty acid and phospholipid
metabolism, Biosynthesis].
Length = 169
Score = 30.9 bits (70), Expect = 0.084
Identities = 11/33 (33%), Positives = 17/33 (51%), Gaps = 3/33 (9%)
Query: 42 VKDTVGNLPSGYTVVRVHFN-NPGMWYFHCHFV 73
+ +T G GY V + P +W+F CHF+
Sbjct: 40 ISETGGKFGKGY--VEAELDIRPDLWFFGCHFI 70
>gnl|CDD|179953 PRK05174, PRK05174, 3-hydroxydecanoyl-(acyl carrier protein)
dehydratase; Validated.
Length = 172
Score = 28.6 bits (65), Expect = 0.65
Identities = 9/17 (52%), Positives = 11/17 (64%), Gaps = 4/17 (23%)
Query: 62 NPGMWYFHCHF----VM 74
NP +W+F CHF VM
Sbjct: 62 NPDLWFFGCHFIGDPVM 78
>gnl|CDD|153213 cd01742, GATase1_GMP_Synthase, Type 1 glutamine amidotransferase
(GATase1) domain found in GMP synthetase. Type 1
glutamine amidotransferase (GATase1) domain found in GMP
synthetase. GMP synthetase is a glutamine
amidotransferase from the de novo purine biosynthetic
pathway. Glutamine amidotransferase (GATase) activity
catalyse the transfer of ammonia from the amide side
chain of glutamine to an acceptor substrate. GMP
synthetase catalyses the amination of the nucleotide
precursor xanthosine 5'-monophospahte to form GMP. GMP
synthetase belongs to the triad family of
amidotransferases having a conserved Cys-His-Glu
catalytic triad in the glutaminase active site.
Length = 181
Score = 27.5 bits (62), Expect = 1.4
Identities = 15/50 (30%), Positives = 20/50 (40%), Gaps = 12/50 (24%)
Query: 44 DTVGNLPSGYTVVRVHFNNP--GM------WY---FHCHFVMHTDTGMTL 82
D V LP G+ V+ N P + Y FH V HT+ G +
Sbjct: 128 DEVVKLPEGFKVIASSDNCPVAAIANEEKKIYGVQFHPE-VTHTEKGKEI 176
>gnl|CDD|211365 cd09254, AP_delta-COPI_MHD, Mu homology domain (MHD) of adaptor
protein (AP) coat protein I (COPI) delta subunit. COPI
complex-coated vesicles function in the early secretory
pathway. They mediate the retrograde transport from the
Golgi to the ER, and intra-Golgi transport. COPI
complex-coated vesicles consist of a small GTPase,
ADP-ribosylation factor 1 (ARF1) and a heteroheptameric
coatomer composed of two subcomplexes, F-COPI and
B-COPI. ARF1 regulates COPI vesicle formation by
recruiting the coatomer onto Golgi membranes to
initiate its coat function. Coatomer complexes then
bind cargo molecules and self-assemble to form
spherical cages that yield COPI-coated vesicles. The
heterotetrameric F-COPI subcomplex contains beta-,
gamma-, delta-, and zeta-COP subunits, where beta- and
gamma-COP subunits are related to the large AP
subunits, and delta- and zeta-COP subunits are related
to the medium and small AP subunits, respectively. Due
to the sequence similarity to the AP complexes, the
F-COPI subcomplex might play a role in the
cargo-binding. The heterotrimeric B-COPI contains
alpha-, beta-, and epsilon-COP subunits, which are not
related to the adaptins. This subcomplex is thought to
participate in the cage-forming and might serve a
function similar to that of clathrin. This family
corresponds to the mu homology domain of delta-subunit
of COPI complex (delta-COP), which is distantly related
to the C-terminal domain of mu chains among AP
complexes. The delta-COP subunit appears tightly
associated with the beta-COP subunit to confer its
interaction with ARF1. In addition, both delta- and
beta-COP subunits contribute to a common binding site
for arginine (R)-based signals, which are sorting
motifs conferring transient endoplasmic reticulum (ER)
localization to unassembled subunits of multimeric
membrane proteins.
Length = 232
Score = 27.6 bits (62), Expect = 1.7
Identities = 13/38 (34%), Positives = 16/38 (42%)
Query: 6 QGKIPPNVDKGLFLSQLIRQLDQEGPRLRTTQPRPIVK 43
Q K PNVDK LF S + L P ++K
Sbjct: 55 QFKTHPNVDKKLFTSDSVLGLKDPSKPFPVNDPVGVLK 92
>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 = 26.2 bits (58), Expect = 3.3
Identities = 17/94 (18%), Positives = 26/94 (27%), Gaps = 2/94 (2%)
Query: 18 FLSQLIRQLDQEGPRLRTTQPRPIVKDTVGNLPSGYTVVRVHFNNPGMWYFHCHFVMHTD 77
LSQL+ P Q + DT+ + F F M
Sbjct: 15 LLSQLVGGEFPPEPLE--IQGDTLAVDTLEVDGDTGLLNIWDFGGREELKFEHIIFMKWA 72
Query: 78 TGMTLVFQVGDRKQFVRAPPHFPQCDNFQPAVTK 111
+ LV+ + DR+ N + K
Sbjct: 73 DAILLVYDLTDRESLNEVSRLIAWLPNLRKLGGK 106
>gnl|CDD|238614 cd01287, FabA, FabA, beta-hydroxydecanoyl-acyl carrier protein
(ACP)-dehydratase: Bacterial protein of the type II,
fatty acid synthase system that binds ACP and catalyzes
both dehydration and isomerization reactions,
apparently in the same active site. The FabA structure
is a homodimer with two independent active sites
located at the dimer interface. Each active site is
tunnel-shaped and completely inaccessible to solvent.
No metal ions or cofactors are required for ligand
binding or catalysis.
Length = 150
Score = 26.1 bits (58), Expect = 4.0
Identities = 8/17 (47%), Positives = 10/17 (58%), Gaps = 4/17 (23%)
Query: 62 NPGMWYFHCHF----VM 74
+P W+F CHF VM
Sbjct: 36 DPDDWFFPCHFHGDPVM 52
>gnl|CDD|219679 pfam07977, FabA, FabA-like domain. This enzyme domain has a
HotDog fold.
Length = 133
Score = 26.0 bits (58), Expect = 4.5
Identities = 7/17 (41%), Positives = 8/17 (47%), Gaps = 4/17 (23%)
Query: 62 NPGMWYFHCHF----VM 74
P W+F HF VM
Sbjct: 34 TPNEWFFQGHFPGDPVM 50
>gnl|CDD|232945 TIGR00376, TIGR00376, DNA helicase, putative. The gene product may
represent a DNA helicase. Eukaryotic members of this
family have been characterized as binding certain
single-stranded G-rich DNA sequences (GGGGT and GGGCT).
A number of related proteins are characterized as
helicases [DNA metabolism, DNA replication,
recombination, and repair].
Length = 637
Score = 26.3 bits (58), Expect = 4.9
Identities = 15/37 (40%), Positives = 19/37 (51%)
Query: 10 PPNVDKGLFLSQLIRQLDQEGPRLRTTQPRPIVKDTV 46
PP K L +LIRQL + G R+ T P I D +
Sbjct: 181 PPGTGKTRTLVELIRQLVKRGLRVLVTAPSNIAVDNL 217
>gnl|CDD|226861 COG4454, COG4454, Uncharacterized copper-binding protein [Inorganic
ion transport and metabolism].
Length = 158
Score = 25.9 bits (57), Expect = 5.1
Identities = 9/29 (31%), Positives = 12/29 (41%)
Query: 58 VHFNNPGMWYFHCHFVMHTDTGMTLVFQV 86
V F G + F C+ H + GM V
Sbjct: 128 VVFTGAGKYEFACNIPGHYEAGMVGEITV 156
>gnl|CDD|224868 COG1957, URH1, Inosine-uridine nucleoside N-ribohydrolase
[Nucleotide transport and metabolism].
Length = 311
Score = 26.0 bits (58), Expect = 5.3
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 31 PRLRTTQPRPIVKDTVGNLPSGYTVV 56
P L TT+ + +T G L G TVV
Sbjct: 251 PELFTTREANVDVETAGGLTRGMTVV 276
>gnl|CDD|143377 cd07872, STKc_PCTAIRE2, Catalytic domain of the Serine/Threonine
Kinase, PCTAIRE-2 kinase. Serine/Threonine Kinases
(STKs), PCTAIRE-2 subfamily, catalytic (c) domain. STKs
catalyze the transfer of the gamma-phosphoryl group
from ATP to serine/threonine residues on protein
substrates. The PCTAIRE-2 subfamily is part of a larger
superfamily that includes the catalytic domains of
other protein STKs, protein tyrosine kinases, RIO
kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. PCTAIRE-2 shares
sequence similarity with Cyclin-Dependent Kinases
(CDKs), which belong to a large family of STKs that are
regulated by their cognate cyclins. Together, CDKs and
cyclins are involved in the control of cell-cycle
progression, transcription, and neuronal function.
PCTAIRE-2 is specifically expressed in neurons in the
central nervous system, mainly in terminally
differentiated neurons. It associates with Trap (Tudor
repeat associator with PCTAIRE-2) and could play a role
in regulating mitochondrial function in neurons.
Length = 309
Score = 25.7 bits (56), Expect = 7.9
Identities = 11/25 (44%), Positives = 18/25 (72%), Gaps = 2/25 (8%)
Query: 71 HFVMHTDTGMTLVFQVGDR--KQFV 93
H ++HTD +TLVF+ D+ KQ++
Sbjct: 70 HDIVHTDKSLTLVFEYLDKDLKQYM 94
>gnl|CDD|216665 pfam01725, Ham1p_like, Ham1 family. This family consists of the
HAM1 protein and hypothetical archaeal bacterial and C.
elegans proteins. HAM1 controls 6-N-hydroxylaminopurine
(HAP) sensitivity and mutagenesis in S. cerevisiae
inosine triphosphate pyrophosphatase. The HAM1 protein
protects the cell from HAP, either on the level of
deoxynucleoside triphosphate or the DNA level by a yet
unidentified set of reactions.
Length = 181
Score = 25.2 bits (56), Expect = 8.3
Identities = 7/19 (36%), Positives = 9/19 (47%)
Query: 67 YFHCHFVMHTDTGMTLVFQ 85
YF C + G LVF+
Sbjct: 106 YFVCVIALADPDGKVLVFE 124
>gnl|CDD|201420 pfam00735, Septin, Septin. Members of this family include CDC3,
CDC10, CDC11 and CDC12/Septin. Members of this family
bind GTP. As regards the septins, these are
polypeptides of 30-65kDa with three characteristic
GTPase motifs (G-1, G-3 and G-4) that are similar to
those of the Ras family. The G-4 motif is strictly
conserved with a unique septin consensus of AKAD. Most
septins are thought to have at least one coiled-coil
region, which in some cases is necessary for
intermolecular interactions that allow septins to
polymerise to form rod-shaped complexes. In turn, these
are arranged into tandem arrays to form filaments. They
are multifunctional proteins, with roles in
cytokinesis, sporulation, germ cell development,
exocytosis and apoptosis.
Length = 280
Score = 25.3 bits (56), Expect = 8.7
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 17 LFLSQLIRQLDQEGPRLRTTQPRPIVKDTV 46
LFL+ LI + GP + + I TV
Sbjct: 24 LFLTDLIPERGIPGPSEKIKKTVEIKATTV 53
>gnl|CDD|143307 cd05899, IgV_TCR_beta, Immunoglobulin (Ig) variable (V) domain of
T-cell receptor (TCR) bet a chain. IgV_TCR_beta:
immunoglobulin (Ig) variable domain of the beta chain
of alpha/beta T-cell antigen receptors (TCRs). TCRs
mediate antigen recognition by T lymphocytes, and are
composed of alpha and beta, or gamma and delta,
polypeptide chains with variable (V) and constant (C)
regions. This group includes the variable domain of the
alpha chain of alpha/beta TCRs. Alpha/beta TCRs
recognize antigen as peptide fragments presented by
major histocompatibility complex (MHC) molecules. The
variable domain of TCRs is responsible for antigen
recognition, and is located at the N-terminus of the
receptor. Gamma/delta TCRs recognize intact protein
antigens; they recognize proteins antigens directly and
without antigen processing, and MHC independently of
the bound peptide.
Length = 110
Score = 24.9 bits (55), Expect = 8.9
Identities = 6/35 (17%), Positives = 13/35 (37%)
Query: 24 RQLDQEGPRLRTTQPRPIVKDTVGNLPSGYTVVRV 58
RQ +G +L + + G+ ++ R
Sbjct: 33 RQDPGKGLQLLFYSNGGSLNEEEGDPKDRFSASRP 67
>gnl|CDD|165099 PHA02732, PHA02732, hypothetical protein; Provisional.
Length = 1467
Score = 25.5 bits (55), Expect = 9.2
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 5/32 (15%)
Query: 41 IVKDTVGNLP-----SGYTVVRVHFNNPGMWY 67
I VG+ P SG+ + V F N G++Y
Sbjct: 200 IYSPNVGDQPTDIGASGFLALLVDFYNGGIFY 231
>gnl|CDD|222730 pfam14392, zf-CCHC_4, Zinc knuckle. The zinc knuckle is a zinc
binding motif composed of the the following CX2CX4HX4C
where X can be any amino acid. This particular family
is found in plant proteins.
Length = 49
Score = 23.7 bits (52), Expect = 9.5
Identities = 12/40 (30%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 39 RPIVKDTVGNLPSGY-TVVRVHFNNPGMWYFHCHFVMHTD 77
+P+ + PSG VV+V + + FHC + H+D
Sbjct: 5 KPLRFEVNVKFPSGEEAVVKVRYERLPNFCFHCGRLGHSD 44
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
0.324 0.139 0.452
Gapped
Lambda K H
0.267 0.0796 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,274,501
Number of extensions: 525753
Number of successful extensions: 527
Number of sequences better than 10.0: 1
Number of HSP's gapped: 527
Number of HSP's successfully gapped: 35
Length of query: 123
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 38
Effective length of database: 7,167,512
Effective search space: 272365456
Effective search space used: 272365456
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.1 bits)