RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14320
(253 letters)
>gnl|CDD|176471 cd03302, Adenylsuccinate_lyase_2, Adenylsuccinate lyase
(ASL)_subgroup 2. This subgroup contains mainly
eukaryotic proteins similar to ASL, a member of the
Lyase class I family. Members of this family for the
most part catalyze similar beta-elimination reactions
in which a C-N or C-O bond is cleaved with the release
of fumarate as one of the products. These proteins are
active as tetramers. The four active sites of the
homotetrameric enzyme are each formed by residues from
three different subunits. ASL catalyzes two steps in
the de novo purine biosynthesis: the conversion of
5-aminoimidazole-(N-succinylocarboxamide) ribotide
(SAICAR) into 5-aminoimidazole-4-carboxamide ribotide
(AICAR) and, the conversion of adenylsuccinate (SAMP)
into adenosine monophosphate (AMP). ASL deficiency has
been linked to several pathologies including
psychomotor retardation with autistic features,
epilepsy and muscle wasting.
Length = 436
Score = 75.8 bits (187), Expect = 9e-16
Identities = 22/36 (61%), Positives = 31/36 (86%)
Query: 12 LSTRYASKEMQHNFSDMKKFTTWRQLWIYLAEAQQS 47
L++RYASKEM + FS KKF+TWR+LW++LAEA++
Sbjct: 1 LASRYASKEMVYIFSPRKKFSTWRKLWLWLAEAEKE 36
Score = 75.4 bits (186), Expect = 1e-15
Identities = 22/35 (62%), Positives = 31/35 (88%)
Query: 216 LSTRYASKEMQHNFSDMKKFTTWRQLWIYLAEAQQ 250
L++RYASKEM + FS KKF+TWR+LW++LAEA++
Sbjct: 1 LASRYASKEMVYIFSPRKKFSTWRKLWLWLAEAEK 35
>gnl|CDD|223094 COG0015, PurB, Adenylosuccinate lyase [Nucleotide transport and
metabolism].
Length = 438
Score = 44.1 bits (105), Expect = 3e-05
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 12 LSTRYASKEMQHNFSDMKKFTTWRQLWIYLAEAQ 45
L RY+S EM+ FS+ K W ++ LA AQ
Sbjct: 1 LDGRYSSPEMRAIFSEEAKLRAWLKVEAALARAQ 34
Score = 44.1 bits (105), Expect = 3e-05
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 216 LSTRYASKEMQHNFSDMKKFTTWRQLWIYLAEAQ 249
L RY+S EM+ FS+ K W ++ LA AQ
Sbjct: 1 LDGRYSSPEMRAIFSEEAKLRAWLKVEAALARAQ 34
>gnl|CDD|233192 TIGR00928, purB, adenylosuccinate lyase. This family consists of
adenylosuccinate lyase, the enzyme that catalyzes step
8 in the purine biosynthesis pathway for de novo
synthesis of IMP and also the final reaction in the
two-step sequence from IMP to AMP [Purines,
pyrimidines, nucleosides, and nucleotides, Purine
ribonucleotide biosynthesis].
Length = 435
Score = 42.3 bits (100), Expect = 1e-04
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 12 LSTRYASKEMQHNFSDMKKFTTWRQLWIYLAEAQ 45
L RY + EM+ +S+ KF TW + + L A
Sbjct: 1 LDERYGTPEMRAIWSEENKFKTWLDVEVALLRAL 34
Score = 42.3 bits (100), Expect = 1e-04
Identities = 12/34 (35%), Positives = 18/34 (52%)
Query: 216 LSTRYASKEMQHNFSDMKKFTTWRQLWIYLAEAQ 249
L RY + EM+ +S+ KF TW + + L A
Sbjct: 1 LDERYGTPEMRAIWSEENKFKTWLDVEVALLRAL 34
>gnl|CDD|176467 cd01595, Adenylsuccinate_lyase_like, Adenylsuccinate lyase
(ASL)_like. This group contains ASL, prokaryotic-type
3-carboxy-cis,cis-muconate cycloisomerase (pCMLE), and
related proteins. These proteins are members of the
Lyase class I family. Members of this family for the
most part catalyze similar beta-elimination reactions
in which a C-N or C-O bond is cleaved with the release
of fumarate as one of the products. These proteins are
active as tetramers. The four active sites of the
homotetrameric enzyme are each formed by residues from
three different subunits. ASL catalyzes two steps in
the de novo purine biosynthesis: the conversion of
5-aminoimidazole-(N-succinylocarboxamide) ribotide
(SAICAR) into 5-aminoimidazole-4-carboxamide ribotide
(AICAR) and; the conversion of adenylsuccinate (SAMP)
into adenosine monophosphate (AMP). pCMLE catalyzes the
cyclization of 3-carboxy-cis,cis-muconate (3CM) to
4-carboxy-muconolactone, in the beta-ketoadipate
pathway. ASL deficiency has been linked to several
pathologies including psychomotor retardation with
autistic features, epilepsy and muscle wasting.
Length = 381
Score = 37.9 bits (89), Expect = 0.003
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 21 MQHNFSDMKKFTTWRQLWIYLAEAQ 45
M+ FS+ K TW + LAEAQ
Sbjct: 1 MRAIFSEENKLRTWLDVEAALAEAQ 25
Score = 37.9 bits (89), Expect = 0.003
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 225 MQHNFSDMKKFTTWRQLWIYLAEAQ 249
M+ FS+ K TW + LAEAQ
Sbjct: 1 MRAIFSEENKLRTWLDVEAALAEAQ 25
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 32.3 bits (73), Expect = 0.25
Identities = 25/96 (26%), Positives = 40/96 (41%), Gaps = 4/96 (4%)
Query: 72 DSRLGVELERQDDVGKKRSRSEEPEDCRGEEKVEVVLGGAGVDGGGQVTPVVNENEGGEA 131
D G + DD K ++ E + E GVDGGG +E E E
Sbjct: 813 DEHEGQSETQADDTEVKDE--TGEQELNAENQGEAKQDEKGVDGGGGSDGGDSEEEEEEE 870
Query: 132 DESAYTEETEDLKQDEASVAYFSEPLGIDASKVKQR 167
+E EE E+ +++E EPL ++ + +Q+
Sbjct: 871 EEEEEEEEEEEEEEEEEEEN--EEPLSLEWPETRQK 904
Score = 28.8 bits (64), Expect = 3.7
Identities = 18/74 (24%), Positives = 29/74 (39%), Gaps = 6/74 (8%)
Query: 80 ERQDDVGKKRSRSEEPEDCRGEEKVEVVLGGAGVDGGGQVTPVVNENEGGEADESAYTE- 138
+ G+ S E P + +GE++ E + D G+ E+EG E E
Sbjct: 671 GETETKGENESEGEIPAERKGEQEGEGEIEAKEADHKGETEAEEVEHEGETEAEGTEDEG 730
Query: 139 ETE-----DLKQDE 147
E E + +DE
Sbjct: 731 EIETGEEGEEVEDE 744
>gnl|CDD|176464 cd01360, Adenylsuccinate_lyase_1, Adenylsuccinate lyase
(ASL)_subgroup 1. This subgroup contains bacterial and
archeal proteins similar to ASL, a member of the Lyase
class I family. Members of this family for the most
part catalyze similar beta-elimination reactions in
which a C-N or C-O bond is cleaved with the release of
fumarate as one of the products. These proteins are
active as tetramers. The four active sites of the
homotetrameric enzyme are each formed by residues from
three different subunits. ASL catalyzes two steps in
the de novo purine biosynthesis: the conversion of
5-aminoimidazole-(N-succinylocarboxamide) ribotide
(SAICAR) into 5-aminoimidazole-4-carboxamide ribotide
(AICAR) and, the conversion of adenylsuccinate (SAMP)
into adenosine monophosphate (AMP).
Length = 387
Score = 31.8 bits (73), Expect = 0.32
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 15 RYASKEMQHNFSDMKKFTTWRQLWIYLAEAQ 45
RY EM+ +S+ KF W ++ + EA
Sbjct: 1 RYGRPEMKKIWSEENKFRKWLEVEAAVCEAW 31
Score = 31.8 bits (73), Expect = 0.32
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 219 RYASKEMQHNFSDMKKFTTWRQLWIYLAEAQ 249
RY EM+ +S+ KF W ++ + EA
Sbjct: 1 RYGRPEMKKIWSEENKFRKWLEVEAAVCEAW 31
>gnl|CDD|237284 PRK13108, PRK13108, prolipoprotein diacylglyceryl transferase;
Reviewed.
Length = 460
Score = 31.5 bits (71), Expect = 0.47
Identities = 15/95 (15%), Positives = 26/95 (27%), Gaps = 15/95 (15%)
Query: 62 TLEADRCTVVDSRLGVELERQDDVGKKRSRSEEPEDCRGEEKVEVVLGGAGVDGGGQVTP 121
+ A+ V R G ++ + E+P D G+
Sbjct: 343 EVAAESVVQVADRDGESTPAVEETSEADIEREQPGDLAGQAPAA---------------H 387
Query: 122 VVNENEGGEADESAYTEETEDLKQDEASVAYFSEP 156
V+ A E +E + E V + P
Sbjct: 388 QVDAEAASAAPEEPAALASEAHDETEPEVPEKAAP 422
>gnl|CDD|213279 cd05911, Firefly_Luc_like, Firefly luciferase of light emitting
insects and 4-Coumarate-CoA Ligase (4CL). This family
contains two functionally unique groups of proteins; one
group is insect firefly luciferases and the other is
plant 4-coumarate:coenzyme A ligases. However, they
share significant sequence similarity in spite of their
functional diversity. Luciferase catalyzes the
production of light in the presence of MgATP, molecular
oxygen, and luciferin. In the first step, luciferin is
activated by acylation of its carboxylate group with
ATP, resulting in an enzyme-bound luciferyl adenylate.
In the second step, luciferyl adenylate reacts with
molecular oxygen, producing an enzyme-bound excited
state product (Luc=O*) and releasing AMP. This
excited-state product then decays to the ground state
(Luc=O), emitting a quantum of visible light.
4-coumarate:coenzyme A ligase is a key enzyme in the
phenylpropanoid metabolic pathway for monolignol and
flavonoid biosynthesis. It catalyzes the synthesis of
hydroxycinnamate-CoA thioesters in a two-step reaction,
involving the formation of hydroxycinnamate-AMP
anhydride and then the nucleophilic substitution of AMP
by CoA. The phenylpropanoid pathway is one of the most
important secondary metabolism pathways in plants and
hydroxycinnamate-CoA thioesters are the precursors of
lignin and other important phenylpropanoids.
Length = 487
Score = 30.3 bits (69), Expect = 1.0
Identities = 15/77 (19%), Positives = 27/77 (35%), Gaps = 4/77 (5%)
Query: 9 ISPLSTRYASKEMQHNFSDMKK---FTTWRQLWIYLAEAQQSGFRNNIYIDPKHNFTLEA 65
+S + Y E+ H K F +L A++ G I + +
Sbjct: 62 VSAANPSYTPDELAHQLKISKPKLIFCDPDELDKVKEAAKELGPVVRIIVLDSAPDGVL- 120
Query: 66 DRCTVVDSRLGVELERQ 82
+++ RLG E E +
Sbjct: 121 RIEDLLEPRLGAEDEFR 137
>gnl|CDD|116069 pfam07448, Spp-24, Secreted phosphoprotein 24 (Spp-24). This
family represents a conserved region approximately 140
residues long within secreted phosphoprotein 24
(Spp-24), which seems to be restricted to vertebrates.
This is a non-collagenous protein found in bone that is
related in sequence to the cystatin family of thiol
protease inhibitors. This suggests that Spp-24 could
function to modulate the thiol protease activities known
to be involved in bone turnover. It is also possible
that the intact form of Spp-24 found in bone could be a
precursor to a biologically active peptide that
coordinates an aspect of bone turnover.
Length = 139
Score = 28.4 bits (63), Expect = 1.9
Identities = 16/52 (30%), Positives = 20/52 (38%), Gaps = 5/52 (9%)
Query: 191 PTQAVNSTTSTSSNMD---HEHCKYISPLSTRYASKEMQHNFSDMKKFTTWR 239
PT ST S+ C + S S +S+EM F DM T R
Sbjct: 40 PTAVCRSTVRMSAEQVQNVWARCHWSSSTSESSSSEEMI--FGDMLGSHTSR 89
Score = 26.8 bits (59), Expect = 7.3
Identities = 11/33 (33%), Positives = 14/33 (42%), Gaps = 2/33 (6%)
Query: 3 HEHCKYISPLSTRYASKEMQHNFSDMKKFTTWR 35
C + S S +S+EM F DM T R
Sbjct: 59 WARCHWSSSTSESSSSEEMI--FGDMLGSHTSR 89
>gnl|CDD|234375 TIGR03860, FMN_nitrolo, FMN-dependent oxidoreductase,
nitrilotriacetate monooxygenase family. This model
represents a distinctive clade, in which all
characterized members are FMN-binding, within the larger
family of luciferase-like monooxygenases (LLM), among
which there are both FMN- and F420-binding enzymes. A
well-characterized member is nitrilotriacetate
monooxygenase from Aminobacter aminovorans
(Chelatobacter heintzii), where nitrilotriacetate is a
chelating agent used in detergents [Unknown function,
Enzymes of unknown specificity].
Length = 422
Score = 29.4 bits (67), Expect = 1.9
Identities = 14/47 (29%), Positives = 20/47 (42%), Gaps = 7/47 (14%)
Query: 119 VTPVVNENEGGEADESAYT--EETEDLKQDEASVAYFSEPLGIDASK 163
+TP+V G + A E + L E +A S GID S+
Sbjct: 268 ITPIV-----GRTEAEARAKYAELQSLISPEGGLALLSGWTGIDLSQ 309
>gnl|CDD|241510 cd13356, PH-GRAM_MTMR2_mammal-like, Myotubularian related 2
protein (MTMR2) Pleckstrin
Homology-Glucosyltransferases, Rab-like GTPase
activators and Myotubularins (PH-GRAM) domain. MTMR2
is a member of the myotubularin protein phosphatase
gene family. MTMR2 binds to phosphoinositide lipids
through its PH-GRAM domain, and can hydrolyze
phosphatidylinositol(3)-phosphate and
phosphatidylinositol(3,5)-biphosphate in vitro.
Mutations in MTMR2 are a cause of Charcot-Marie-Tooth
disease type 4B, an autosomal recessive demyelinating
neuropathy. The protein can self-associate and form
heteromers with MTMR5 and MTMR12. MTMR2 contains a
N-terminal PH-GRAM domain, a Rac-induced recruitment
domain (RID) domain, an active PTP domain, a
SET-interaction domain, a coiled-coil region, and a
C-terminal PDZ domain. Myotubularin-related proteins
are a subfamily of protein tyrosine phosphatases (PTPs)
that dephosphorylate D3-phosphorylated inositol lipids.
Mutations in this family cause the human neuromuscular
disorders myotubular myopathy and type 4B
Charcot-Marie-Tooth syndrome. 6 of the 13 MTMRs (MTMRs
5, 9-13) contain naturally occurring substitutions of
residues required for catalysis by PTP family enzymes.
Although these proteins are predicted to be
enzymatically inactive, they are thought to function as
antagonists of endogenous phosphatase activity or
interaction modules. Most MTMRs contain a N-terminal
PH-GRAM domain, a Rac-induced recruitment domain (RID)
domain, a PTP domain (which may be active or inactive),
a SET-interaction domain, and a C-terminal coiled-coil
region. In addition some members contain DENN domain
N-terminal to the PH-GRAM domain and FYVE, PDZ, and PH
domains C-terminal to the coiled-coil region. The GRAM
domain, found in myotubularins, glucosyltransferases,
and other putative membrane-associated proteins, is
part of a larger motif with a pleckstrin homology (PH)
domain fold. The PH domain family possesses multiple
functions including the ability to bind
phosphoinositides via its beta1/beta2, beta3/beta4, and
beta6/beta7 connecting loops and to other proteins.
However, no phosphoinositide binding sites have been
found for the MTMRs to date.Members in this cd include
mammals, chickens, anoles, human body lice, and aphids.
Length = 144
Score = 28.4 bits (63), Expect = 2.3
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 62 TLEADRCTVVDSRLGVELERQDDVGKKRSRSEEP 95
++E D V+D+ LGV + R + +G SR E
Sbjct: 44 SMERDPPFVLDASLGV-INRVEKIGGASSRGENS 76
>gnl|CDD|235745 PRK06214, PRK06214, sulfite reductase; Provisional.
Length = 530
Score = 28.5 bits (64), Expect = 3.6
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 40 YLAEAQQSGFRNNIYIDPKHNFTLEAD 66
+L E G R +Y+ H F L AD
Sbjct: 355 FLGERLAPGTRVRVYVQKAHGFALPAD 381
>gnl|CDD|241478 cd13324, PH_Gab-like, Grb2-associated binding protein family
Pleckstrin homology (PH) domain. Gab proteins are
scaffolding adaptor proteins, which possess N-terminal
PH domains and a C-terminus with proline-rich regions
and multiple phosphorylation sites. Following
activation of growth factor receptors, Gab proteins are
tyrosine phosphorylated and activate PI3K, which
generates 3-phosphoinositide lipids. By binding to
these lipids via the PH domain, Gab proteins remain in
proximity to the receptor, leading to further
signaling. While not all Gab proteins depend on the PH
domain for recruitment, it is required for Gab
activity. There are 3 families: Gab1, Gab2, and Gab3.
PH domains have diverse functions, but in general are
involved in targeting proteins to the appropriate
cellular location or in the interaction with a binding
partner. They share little sequence conservation, but
all have a common fold, which is electrostatically
polarized. Less than 10% of PH domains bind
phosphoinositide phosphates (PIPs) with high affinity
and specificity. PH domains are distinguished from
other PIP-binding domains by their specific
high-affinity binding to PIPs with two vicinal
phosphate groups: PtdIns(3,4)P2, PtdIns(4,5)P2 or
PtdIns(3,4,5)P3 which results in targeting some PH
domain proteins to the plasma membrane. A few display
strong specificity in lipid binding. Any specificity is
usually determined by loop regions or insertions in the
N-terminus of the domain, which are not conserved
across all PH domains. PH domains are found in cellular
signaling proteins such as serine/threonine kinase,
tyrosine kinases, regulators of G-proteins, endocytotic
GTPases, adaptors, as well as cytoskeletal associated
molecules and in lipid associated enzymes.
Length = 103
Score = 26.2 bits (58), Expect = 7.9
Identities = 13/58 (22%), Positives = 23/58 (39%), Gaps = 9/58 (15%)
Query: 34 WRQLWIYLAEAQQSG-------FRNNIYIDPKHNFTLEADRCTVVDSRLGVELERQDD 84
W++ W L + SG ++++ P L D C VD+ L E + +
Sbjct: 19 WKKRWFVLRSGRLSGDPDVLEYYKDDHCKKPIGAIDL--DECEQVDAGLTFEYKEFKN 74
>gnl|CDD|188163 TIGR01735, FGAM_synt, phosphoribosylformylglycinamidine synthase,
single chain form. This model represents a
single-molecule form of
phosphoribosylformylglycinamidine synthase, also called
FGAM synthase, an enzyme of purine de novo biosynthesis.
This form is found mostly in eukaryotes and
Proteobacteria. In Bacillus subtilis PurL (FGAM synthase
II) and PurQ (FGAM synthase I), homologous to different
parts of this model, perform the equivalent function;
the unrelated small protein PurS is also required and
may be a third subunit [Purines, pyrimidines,
nucleosides, and nucleotides, Purine ribonucleotide
biosynthesis].
Length = 1310
Score = 27.4 bits (61), Expect = 8.5
Identities = 14/43 (32%), Positives = 17/43 (39%), Gaps = 4/43 (9%)
Query: 140 TEDLKQDEASVAYFSEPLGIDASKVKQRCGWLVFGWVHDRLGN 182
T DLK D+ S L +D K R G V +LG
Sbjct: 830 TPDLKHDKG----DSHLLLVDLGPGKNRLGGSALAQVFGQLGG 868
>gnl|CDD|224227 COG1308, EGD2, Transcription factor homologous to NACalpha-BTF3
[Transcription].
Length = 122
Score = 26.2 bits (58), Expect = 8.7
Identities = 18/90 (20%), Positives = 33/90 (36%), Gaps = 18/90 (20%)
Query: 74 RLGVELERQDDV-------GKKRSRSEEPE----DCRGEEKVEVVLGGAGVDGGGQVTPV 122
++G+++E D V E P+ G++ ++ G
Sbjct: 17 QMGIDVEELDGVERVIIKLKDTEYVIENPQVTVMKAMGQKTYQIS-------GDPSAKEA 69
Query: 123 VNENEGGEADESAYTEETEDLKQDEASVAY 152
V + E DES +EE L ++A V+
Sbjct: 70 VKKPEEKTVDESDISEEDIKLVMEQAGVSR 99
>gnl|CDD|180954 PRK07380, PRK07380, adenylosuccinate lyase; Provisional.
Length = 431
Score = 27.3 bits (61), Expect = 8.8
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 15 RYASKEMQHNFSDMKKFTTWRQLWIYLAEAQ 45
RY EM + ++D KF TW + I + EAQ
Sbjct: 4 RYTLPEMGNIWTDTAKFQTWLDVEIAVCEAQ 34
Score = 27.3 bits (61), Expect = 8.8
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 219 RYASKEMQHNFSDMKKFTTWRQLWIYLAEAQ 249
RY EM + ++D KF TW + I + EAQ
Sbjct: 4 RYTLPEMGNIWTDTAKFQTWLDVEIAVCEAQ 34
>gnl|CDD|178664 PLN03117, PLN03117, Branched-chain-amino-acid aminotransferase;
Provisional.
Length = 355
Score = 27.2 bits (60), Expect = 9.8
Identities = 9/29 (31%), Positives = 17/29 (58%)
Query: 28 MKKFTTWRQLWIYLAEAQQSGFRNNIYID 56
+K T + + L EA+ SGF + +++D
Sbjct: 197 VKSCTNYSPVVKSLIEAKSSGFSDVLFLD 225
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
0.315 0.131 0.397
Gapped
Lambda K H
0.267 0.0574 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,619,237
Number of extensions: 1144469
Number of successful extensions: 945
Number of sequences better than 10.0: 1
Number of HSP's gapped: 942
Number of HSP's successfully gapped: 27
Length of query: 253
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 158
Effective length of database: 6,723,972
Effective search space: 1062387576
Effective search space used: 1062387576
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: 58 (26.5 bits)