RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14282
(119 letters)
>gnl|CDD|206637 cd11304, Cadherin_repeat, Cadherin tandem repeat domain. Cadherins
are glycoproteins involved in Ca2+-mediated cell-cell
adhesion. The cadherin repeat domains occur as tandem
repeats in the extracellular regions, which are thought
to mediate cell-cell contact when bound to calcium. They
play numerous roles in cell fate, signalling,
proliferation, differentiation, and migration; members
include E-, N-, P-, T-, VE-, CNR-, proto-, and
FAT-family cadherin, desmocollin, and desmoglein, a
large variety of domain architectures with varying
repeat copy numbers. Cadherin-repeat containing proteins
exist as monomers, homodimers, or heterodimers.
Length = 98
Score = 42.3 bits (100), Expect = 3e-06
Identities = 16/59 (27%), Positives = 23/59 (38%), Gaps = 9/59 (15%)
Query: 55 IMEEELPGPYPHSLLKVLATDGDKDRQNNIVYFLTGQGIDADNPGNSKFDINRTTGEIF 113
+ E PG +L V ATD D + Y + + F I+ +TGEI
Sbjct: 6 VPENAPPG---TVVLTVSATDPDSGENGEVTYSIVS------GNEDGLFSIDPSTGEIT 55
Score = 31.9 bits (73), Expect = 0.024
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 3/30 (10%)
Query: 16 YELTLVASDSLN---ENKTTVVIHINDVND 42
Y LT+ A+D + TV I + DVND
Sbjct: 68 YTLTVTATDGGGPPLSSTATVTITVLDVND 97
>gnl|CDD|214520 smart00112, CA, Cadherin repeats. Cadherins are glycoproteins
involved in Ca2+-mediated cell-cell adhesion. Cadherin
domains occur as repeats in the extracellular regions
which are thought to mediate cell-cell contact when
bound to calcium.
Length = 81
Score = 35.4 bits (82), Expect = 9e-04
Identities = 13/33 (39%), Positives = 16/33 (48%), Gaps = 3/33 (9%)
Query: 16 YELTLVASDSLNENK---TTVVIHINDVNDMPP 45
Y LT+ A+D TV I + DVND P
Sbjct: 49 YTLTVEATDGGGPPLSSTATVTITVLDVNDNAP 81
Score = 29.6 bits (67), Expect = 0.12
Identities = 11/41 (26%), Positives = 15/41 (36%), Gaps = 6/41 (14%)
Query: 73 ATDGDKDRQNNIVYFLTGQGIDADNPGNSKFDINRTTGEIF 113
ATD D + Y + + F I+ TGEI
Sbjct: 2 ATDADSGENGKVTYSILS------GNDDGLFSIDPETGEIT 36
>gnl|CDD|215665 pfam00028, Cadherin, Cadherin domain.
Length = 92
Score = 35.0 bits (81), Expect = 0.002
Identities = 15/59 (25%), Positives = 21/59 (35%), Gaps = 9/59 (15%)
Query: 55 IMEEELPGPYPHSLLKVLATDGDKDRQNNIVYFLTGQGIDADNPGNSKFDINRTTGEIF 113
+ E G + V ATD D I Y + G G F I+ TG++
Sbjct: 5 VPENAPVGTEVLT---VTATDADLGPNGRIFYSILGGGPG------GWFRIDPDTGDLS 54
>gnl|CDD|224853 COG1942, COG1942, Uncharacterized protein, 4-oxalocrotonate
tautomerase homolog [General function prediction only].
Length = 69
Score = 28.4 bits (64), Expect = 0.23
Identities = 7/29 (24%), Positives = 16/29 (55%)
Query: 14 LIYELTLVASDSLNENKTTVVIHINDVND 42
L E+T V ++L ++ + + + I +V
Sbjct: 21 LAAEVTEVTVETLGKDPSAIHVIIEEVPP 49
>gnl|CDD|129125 TIGR00013, taut, 4-oxalocrotonate tautomerase family enzyme.
4-oxalocrotonate tautomerase is a homohexamer in which
each monomer is very small, at about 62 amino acids.
Pro-1 of the mature protein serves as a general base.
The enzyme functions in meta-cleavage pathways of
aromatic hydrocarbon catabolism. Because several Arg
residues located near the active site in the crystal
structure of Pseudomonas putida are not conserved among
all members of this family, because the literature
describes a general role in the isomerization of
beta,gamma-unsaturated enones to their
alpha,beta-isomers, and because of the presence of
fairly distantly related paralogs in Campylobacter
jejuni, the family is regarded as not necessarily
uniform in function [Energy metabolism, Other].
Length = 63
Score = 27.0 bits (60), Expect = 0.93
Identities = 7/28 (25%), Positives = 17/28 (60%)
Query: 13 TLIYELTLVASDSLNENKTTVVIHINDV 40
LI +T +++L N ++V+ I+++
Sbjct: 19 QLIEGVTEAMAETLGANLESIVVIIDEM 46
>gnl|CDD|203643 pfam07478, Dala_Dala_lig_C, D-ala D-ala ligase C-terminus. This
family represents the C-terminal, catalytic domain of
the D-alanine--D-alanine ligase enzyme EC:6.3.2.4.
D-Alanine is one of the central molecules of the
cross-linking step of peptidoglycan assembly. There are
three enzymes involved in the D-alanine branch of
peptidoglycan biosynthesis: the pyridoxal
phosphate-dependent D-alanine racemase (Alr), the
ATP-dependent D-alanine:D-alanine ligase (Ddl), and the
ATP-dependent D-alanine:D-alanine-adding enzyme (MurF).
Length = 201
Score = 27.6 bits (62), Expect = 1.5
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 35 IHINDVNDMPPVFNTSLYPAIMEE 58
I++N+VN MP + SLYP +
Sbjct: 164 IYLNEVNTMPGFTSISLYPRMWAA 187
>gnl|CDD|238274 cd00491, 4Oxalocrotonate_Tautomerase, 4-Oxalocrotonate
Tautomerase: Catalyzes the isomerization of
unsaturated ketones. The structure is a homohexamer
that is arranged as a trimer of dimers. The hexamer
contains six active sites, each formed by residues from
three monomers, two from one dimer and the third from a
neighboring monomer. Each monomer is a beta-alpha-beta
fold with two small beta strands at the C-terminus that
fold back on themselves. A pair of monomers form a
dimer with two-fold symmetry, consisting of a
4-stranded beta sheet with two helices on one side and
two additional small beta strands at each end. The
dimers are assembled around a 3-fold axis of rotation
to form a hexamer, with the short beta strands from
each dimer contacting the neighboring dimers.
Length = 58
Score = 25.8 bits (57), Expect = 2.3
Identities = 8/28 (28%), Positives = 16/28 (57%)
Query: 13 TLIYELTLVASDSLNENKTTVVIHINDV 40
LI +T S+ L + T+V+ I+++
Sbjct: 18 ELIERVTEAVSEILGAPEATIVVIIDEM 45
>gnl|CDD|201747 pfam01361, Tautomerase, Tautomerase enzyme. This family includes
the enzyme 4-oxalocrotonate tautomerase that catalyzes
the ketonisation of 2-hydroxymuconate to
2-oxo-3-hexenedioate.
Length = 60
Score = 25.7 bits (57), Expect = 2.4
Identities = 7/30 (23%), Positives = 14/30 (46%)
Query: 13 TLIYELTLVASDSLNENKTTVVIHINDVND 42
LI +T ++L + +V+ I +V
Sbjct: 18 ALIRRVTEAIVEALGAPREAIVVVIEEVPP 47
>gnl|CDD|237768 PRK14615, PRK14615, 4-diphosphocytidyl-2-C-methyl-D-erythritol
kinase; Provisional.
Length = 296
Score = 26.2 bits (58), Expect = 4.8
Identities = 12/38 (31%), Positives = 14/38 (36%), Gaps = 5/38 (13%)
Query: 60 LPGPYPHSLLKVLATDGDKDRQNNIVYFLTGQGIDADN 97
LP P PH L V TD I T +D +
Sbjct: 37 LPLPEPHDELHVRVTDA-----PGITVTCTIPDLDPER 69
>gnl|CDD|224099 COG1178, ThiP, ABC-type Fe3+ transport system, permease component
[Inorganic ion transport and metabolism].
Length = 540
Score = 26.1 bits (58), Expect = 6.0
Identities = 8/17 (47%), Positives = 8/17 (47%)
Query: 3 LYPPGTSNLPTLIYELT 19
L PGT L IY L
Sbjct: 486 LGSPGTRTLTVYIYNLL 502
>gnl|CDD|143605 cd07581, nitrilase_3, Uncharacterized subgroup of the nitrilase
superfamily (putative class 13 nitrilases). The
nitrilase superfamily is comprised of nitrile- or
amide-hydrolyzing enzymes and amide-condensing enzymes,
which depend on a Glu-Lys-Cys catalytic triad. This
superfamily has been classified in the literature based
on global and structure based sequence analysis into
thirteen different enzyme classes (referred to as
1-13). Class 13 represents proteins that at the time
were difficult to place in a distinct similarity group;
this subgroup represents either a new class or one that
was included previously in class 13. Members of this
superfamily generally form homomeric complexes, the
basic building block of which is a homodimer.
Length = 255
Score = 25.6 bits (57), Expect = 6.3
Identities = 7/25 (28%), Positives = 11/25 (44%)
Query: 28 ENKTTVVIHINDVNDMPPVFNTSLY 52
E TVV + + V+NT +
Sbjct: 72 ELGITVVAGMFEPAGDGRVYNTLVV 96
>gnl|CDD|227235 COG4898, COG4898, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 115
Score = 25.3 bits (55), Expect = 6.9
Identities = 8/32 (25%), Positives = 15/32 (46%)
Query: 64 YPHSLLKVLATDGDKDRQNNIVYFLTGQGIDA 95
YP + KV K+ + ++ +LTG +
Sbjct: 14 YPAYIAKVEKKGRTKEEVDEVISWLTGYEVSD 45
>gnl|CDD|132299 TIGR03255, PhnV, 2-aminoethylphosphonate ABC transport system,
membrane component PhnV. This membrane component of an
ABC transport system is found in Salmonella and
Burkholderia lineages in the vicinity of enzymes for the
breakdown of 2-aminoethylphosphonate.
Length = 272
Score = 25.7 bits (56), Expect = 7.5
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 1 MALYPPGTSNLPTLIYELT 19
+ +YPPG + LP I+ T
Sbjct: 219 LMIYPPGFATLPIAIFGAT 237
>gnl|CDD|219673 pfam07970, COPIIcoated_ERV, Endoplasmic reticulum vesicle
transporter. This family is conserved from plants and
fungi to humans. Erv46 works in close conjunction with
Erv41 and together they form a complex which cycles
between the endoplasmic reticulum and Golgi complex.
Erv46-41 interacts strongly with the endoplasmic
reticulum glucosidase II. Mammalian glucosidase II
comprises a catalytic alpha-subunit and a 58 kDa beta
subunit, which is required for ER localisation. All
proteins identified biochemically as Erv41p-Erv46p
interactors are localised to the early secretory pathway
and are involved in protein maturation and processing in
the ER and/or sorting into COPII vesicles for transport
to the Golgi.
Length = 222
Score = 25.3 bits (56), Expect = 9.7
Identities = 5/15 (33%), Positives = 7/15 (46%)
Query: 102 KFDINRTTGEIFFAP 116
++NR G AP
Sbjct: 61 TLEVNRVAGNFHIAP 75
>gnl|CDD|184199 PRK13639, cbiO, cobalt transporter ATP-binding subunit;
Provisional.
Length = 275
Score = 25.4 bits (56), Expect = 9.8
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 9/50 (18%)
Query: 3 LYPPGTSNLPTLIYELTLVASDSLNENKTTVVIHINDVNDMPPVFNTSLY 52
L P G S + L+Y+L N+ T++I +DV D+ PV+ +Y
Sbjct: 168 LDPMGASQIMKLLYDL--------NKEGITIIISTHDV-DLVPVYADKVY 208
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 0.138 0.404
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,143,711
Number of extensions: 528628
Number of successful extensions: 451
Number of sequences better than 10.0: 1
Number of HSP's gapped: 447
Number of HSP's successfully gapped: 22
Length of query: 119
Length of database: 10,937,602
Length adjustment: 82
Effective length of query: 37
Effective length of database: 7,300,574
Effective search space: 270121238
Effective search space used: 270121238
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 (21.5 bits)
S2: 53 (24.2 bits)