RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14327
(140 letters)
>gnl|CDD|220520 pfam10011, DUF2254, Predicted membrane protein (DUF2254). Members
of this family of bacterial proteins comprises various
hypothetical and putative membrane proteins. Their exact
function, has not, as yet, been defined.
Length = 369
Score = 28.3 bits (64), Expect = 1.3
Identities = 15/55 (27%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 41 GVFVGYFVYTTVILISYGFGTTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGY 95
G F+G FVY+ ++LI+ V + + I L + AL Y+I +
Sbjct: 98 GTFIGTFVYSLLVLITIR----GGAYGFVPRLSVLVTILL-AVLSVAALIYFIHH 147
>gnl|CDD|143441 cd07123, ALDH_F4-17_P5CDH, Delta(1)-pyrroline-5-carboxylate
dehydrogenase, ALDH families 4 and 17.
Delta(1)-pyrroline-5-carboxylate dehydrogenase
(EC=1.5.1.12 ), families 4 and 17: a proline catabolic
enzyme of the aldehyde dehydrogenase (ALDH) protein
superfamily. Delta(1)-pyrroline-5-carboxylate
dehydrogenase (P5CDH), also known as ALDH4A1 in humans,
is a mitochondrial homodimer involved in proline
degradation and catalyzes the NAD + -dependent
conversion of P5C to glutamate. This is a necessary step
in the pathway interconnecting the urea and
tricarboxylic acid cycles. The preferred substrate is
glutamic gamma-semialdehyde, other substrates include
succinic, glutaric and adipic semialdehydes. Also
included in this CD is the Aldh17 Drosophila
melanogaster (Q9VUC0) P5CDH and similar sequences.
Length = 522
Score = 28.3 bits (64), Expect = 1.5
Identities = 14/27 (51%), Positives = 16/27 (59%), Gaps = 3/27 (11%)
Query: 31 KNPDVEIIASGVF---VGYFVYTTVIL 54
+P+ EIIA G VGYFV TVI
Sbjct: 378 SDPEAEIIAGGKCDDSVGYFVEPTVIE 404
>gnl|CDD|222890 PHA02584, 34, long tail fiber, proximal subunit; Provisional.
Length = 1229
Score = 28.2 bits (63), Expect = 1.8
Identities = 20/116 (17%), Positives = 35/116 (30%), Gaps = 25/116 (21%)
Query: 32 NPDVEIIASGVFVGYFVYTTVILISYGFGTTQQNETLVDIIMNFIAIF---LWIAVGGIA 88
D ++ GV V +F+ T QQ + +F I+ ++ A I
Sbjct: 26 KADKNVLTDGVNVDFFID---------ENTIQQYDPTRGYDKDFAVIYNNRIYYAKADIT 76
Query: 89 -------LHYWIGYQNEHHYQQVTSERGIGITLGILCIFSGALYLIDTVLSFIHFI 137
W + + + V S G + SG D + + F
Sbjct: 77 APAGAFDPTKWKATRTDPKWITVNSTSGDLQ------LKSGEYIAADGRFANLTFT 126
>gnl|CDD|130561 TIGR01497, kdpB, K+-transporting ATPase, B subunit. This model
describes the P-type ATPase subunit of the complex
responsible for translocating potassium ions across
biological membranes in microbes. In E. coli and other
species, this complex consists of the proteins KdpA,
KdpB, KdpC and KdpF. KdpB is the ATPase subunit, while
KdpA is the potassium-ion translocating subunit. The
function of KdpC is unclear, although cit has been
suggested to couple the ATPase subunit to the
ion-translocating subunit , while KdpF serves to
stabilize the complex. The potassium P-type ATPases
have been characterized as Type IA based on a
phylogenetic analysis which places this clade closest
to the heavy-metal translocating ATPases (Type IB).
Others place this clade closer to the Na+/K+ antiporter
type (Type IIC) based on physical characteristics. This
model is very clear-cut, with a strong break between
trusted hits and noise. All members of the seed
alignment, from Clostridium, Anabaena and E. coli are
in the characterized table. One sequence above trusted,
OMNI|NTL01TA01282, is apparently mis-annotated in the
primary literature, but properly annotated by TIGR
[Transport and binding proteins, Cations and iron
carrying compounds].
Length = 675
Score = 27.9 bits (62), Expect = 2.3
Identities = 13/43 (30%), Positives = 19/43 (44%), Gaps = 3/43 (6%)
Query: 42 VFVGYFVYTTVILISYGFGTTQQNETLVDIIMNFIAIFLWIAV 84
V+VG + T + + FG N L + I I L+I V
Sbjct: 38 VWVGSLLTTCITIAPASFGMPGNNLALFNAI---ITGILFITV 77
>gnl|CDD|216411 pfam01284, MARVEL, Membrane-associating domain. MARVEL
domain-containing proteins are often found in
lipid-associating proteins - such as Occludin and MAL
family proteins. It may be part of the machinery of
membrane apposition events, such as transport vesicle
biogenesis.
Length = 132
Score = 26.1 bits (58), Expect = 4.8
Identities = 19/88 (21%), Positives = 30/88 (34%), Gaps = 5/88 (5%)
Query: 47 FVYTTVILISYGFG---TTQQNETLVDIIMNFIAIFLWIAVGGIALHYWIGYQNEHHYQQ 103
F+ L+ Y FG LVD+I++ +A W+A G+
Sbjct: 47 FLIALYFLLLYLFGYSYFPSIAWPLVDLILDALAALFWLAAFIALAAALRGH--SSGSYD 104
Query: 104 VTSERGIGITLGILCIFSGALYLIDTVL 131
+ G F+ L+L VL
Sbjct: 105 LGRRCGAAQAAIAFGFFAWLLFLASAVL 132
>gnl|CDD|131660 TIGR02611, TIGR02611, TIGR02611 family protein. Members of this
family are Actinobacterial putative proteins of about
150 amino acids in length with three apparent
transmembrane helix and an unusual motif with consensus
sequence PGPGW [Hypothetical proteins, Conserved].
Length = 121
Score = 25.9 bits (57), Expect = 4.8
Identities = 4/24 (16%), Positives = 11/24 (45%)
Query: 71 IIMNFIAIFLWIAVGGIALHYWIG 94
+++ + + +W + G L W
Sbjct: 95 LLLGSLIVVIWAVLAGTYLWMWGL 118
>gnl|CDD|150822 pfam10206, WRW, Mitochondrial F1F0-ATP synthase, subunit f. This
is a family of small proteins of approximately 110 amino
acids, which are highly conserved from nematodes to
humans. Some members of the family have been annotated
in Swiss-Prot as being the f subunit of mitochondrial
F1F0-ATP synthase but this could not be confirmed. The
sequence has a well-conserved WRW motif. The exact
function of the protein is not known.
Length = 104
Score = 25.1 bits (55), Expect = 8.8
Identities = 8/27 (29%), Positives = 12/27 (44%)
Query: 76 IAIFLWIAVGGIALHYWIGYQNEHHYQ 102
IA + VG + Y I Y H++
Sbjct: 76 IAPIFQVLVGYMVFFYAINYDKLKHHR 102
>gnl|CDD|212124 cd10813, GH38N_AMII_Man2C1, N-terminal catalytic domain of
mammalian cytosolic alpha-mannosidase Man2C1 and
similar proteins; glycoside hydrolase family 38 (GH38).
The subfamily corresponds to cytosolic
alpha-mannosidase Man2C1 (also known as ER-mannosidase
II or neutral/cytosolic mannosidase), mainly found in
various vertebrates, and similar proteins. Man2C1 plays
an essential role in the catabolism of cytosolic free
oligomannosides derived from dolichol intermediates and
the degradation of newly synthesized glycoproteins in
ER or cytosol. It can catalyze the cleavage of alpha
1,2-, alpha 1,3-, and alpha 1,6-linked mannose
residues. Man2C1 is a cobalt-dependent enzyme belonging
to alpha-mannosidase class II. It has a neutral pH
optimum and is strongly inhitibed by furanose analogs
swainsonine (SW) and 1,4-dideoxy-1,4-imino-D-mannitol
(DIM), moderately by deoxymannojirimycin (DMM), but not
by kifunensine (KIF). DMM and KIF, both pyranose
analogs, are normally known to inhibit class I
alpha-mannosidase.
Length = 252
Score = 25.8 bits (57), Expect = 9.9
Identities = 7/10 (70%), Positives = 9/10 (90%)
Query: 16 GQFLGVGGTW 25
G+F+ VGGTW
Sbjct: 73 GRFIPVGGTW 82
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
0.328 0.149 0.462
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 7,664,875
Number of extensions: 729084
Number of successful extensions: 1256
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1245
Number of HSP's successfully gapped: 126
Length of query: 140
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 53
Effective length of database: 7,078,804
Effective search space: 375176612
Effective search space used: 375176612
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 54 (24.5 bits)