RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4290
(135 letters)
>gnl|CDD|204985 pfam12624, Chorein_N, N-terminal region of Chorein, a TM
vesicle-mediated sorter. Although mutations in the
full-length vacuolar protein sorting 13A (VPS13A)
protein in vertebrates lead to the disease of
chorea-acanthocytosis, the exact function of any of the
regions within the protein is not yet known. This
region is the proposed leucine zipper at the
N-terminus. The full-length protein is a transmembrane
protein with a presumed role in vesicle-mediated
sorting and intracellular protein transport.
Length = 117
Score = 78.4 bits (194), Expect = 7e-20
Identities = 25/63 (39%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 21 RSTLQLHLWEGQACFHNLELDLEALESL-VPFHFVSGHINELRIKVPWTSLGSSSVEVVI 79
+ L + +W G NL L +AL+ L +P SGHI +L +K+PW SLGS V + I
Sbjct: 22 KEQLSVSIWSGDVELENLRLKKDALDKLDLPIEVKSGHIGKLTLKIPWKSLGSEPVVITI 81
Query: 80 DTI 82
D +
Sbjct: 82 DDV 84
>gnl|CDD|227376 COG5043, MRS6, Vacuolar protein sorting-associated protein
[Intracellular trafficking and secretion].
Length = 2552
Score = 52.2 bits (125), Expect = 7e-09
Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 24 LQLHLWEGQACFHNLELDLEALESL-VPFHFVSGHINELRIKVPWTSLGSSSVEVVIDTI 82
L + +W G HNL + AL+ L +P SG I L +++PW+SL + VE+ I+ I
Sbjct: 26 LNVGVWGGDVSLHNLRIKPSALDKLGLPIEVTSGLIGTLTLEIPWSSLKNKPVEIYIEDI 85
>gnl|CDD|185295 PRK15397, PRK15397, nicotinamide riboside transporter PnuC;
Provisional.
Length = 239
Score = 28.4 bits (64), Expect = 1.0
Identities = 13/36 (36%), Positives = 17/36 (47%), Gaps = 9/36 (25%)
Query: 77 VVIDTIGYLSGIFECMAAIHALNGRYATALQYAILL 112
V+I+ I I AL G YA +L+Y IL
Sbjct: 189 VIINVIS---------VVIFALQGVYAMSLEYIILT 215
>gnl|CDD|233741 TIGR02128, G6PI_arch, bifunctional phosphoglucose/phosphomannose
isomerase. This bifunctional isomerase is a member of
the larger PGI superfamily and only distantly related to
other glucose-6-phosphate isomerases. The family is
limited to the archaea.
Length = 308
Score = 27.8 bits (62), Expect = 1.7
Identities = 19/90 (21%), Positives = 31/90 (34%), Gaps = 18/90 (20%)
Query: 6 NQFCENEVAELQEFFRSTLQLHLWEGQACFHNLELDLEALESLVPFHFVS----GHINEL 61
N+ EN A+ ++ +L+ HN LE L F+S
Sbjct: 196 NEINEN--AKSPAYYNILPELN--------HNEIEGLEDPYGLYEIVFMSDESDHSRCPK 245
Query: 62 RIKVPWTSLGSSSVEVVIDTIG--YLSGIF 89
R+ + LG + I + G L+ I
Sbjct: 246 RVDITEKILGVVF--ISIYSRGNSLLARIL 273
>gnl|CDD|147585 pfam05480, Staph_haemo, Staphylococcus haemolytic protein. This
family consists of several different short
Staphylococcal proteins, it contains SLUSH A, B and C
proteins as well as haemolysin and gonococcal growth
inhibitor. Some strains of the coagulase-negative
Staphylococcus lugdunensis produce a synergistic
hemolytic activity (SLUSH), phenotypically similar to
the delta-hemolysin of S. aureus. Gonococcal growth
inhibitor from Staphylococcus act on the cytoplasmic
membrane of the gonococcal cell causing cytoplasmic
leakage and, eventually, death.
Length = 43
Score = 25.7 bits (57), Expect = 1.7
Identities = 7/23 (30%), Positives = 14/23 (60%)
Query: 67 WTSLGSSSVEVVIDTIGYLSGIF 89
W LG+S V++V + + ++ F
Sbjct: 20 WAKLGTSIVDIVANGVDFIGKFF 42
>gnl|CDD|128866 smart00603, LCCL, LCCL domain.
Length = 85
Score = 25.4 bits (56), Expect = 4.4
Identities = 12/22 (54%), Positives = 13/22 (59%), Gaps = 4/22 (18%)
Query: 78 VIDTIGY--LSGIFECMAAIHA 97
V TI Y LS I C AA+HA
Sbjct: 34 VFGTIVYASLSSI--CRAAVHA 53
>gnl|CDD|217996 pfam04264, YceI, YceI-like domain. E. coli YceI is a
base-induced periplasmic protein. The recent structure
of a member of this family shows that it binds to
polyisoprenoid. The structure consists of an extended,
eight-stranded, antiparallel beta-barrel that resembles
the lipocalin fold.
Length = 161
Score = 26.1 bits (58), Expect = 5.2
Identities = 11/31 (35%), Positives = 13/31 (41%)
Query: 51 FHFVSGHINELRIKVPWTSLGSSSVEVVIDT 81
V G N+ + G SSVEV ID
Sbjct: 20 ISEVRGRFNDFSGTIDPDDPGDSSVEVTIDL 50
>gnl|CDD|240635 cd12158, ErythrP_dh, D-Erythronate-4-Phosphate Dehydrogenase
NAD-binding and catalytic domains.
D-Erythronate-4-phosphate Dehydrogenase (E. coli gene
PdxB), a D-specific 2-hydroxyacid dehydrogenase family
member, catalyzes the NAD-dependent oxidation of
erythronate-4-phosphate, which is followed by
transamination to form 4-hydroxy-L-threonine-4-phosphate
within the de novo biosynthesis pathway of vitamin B6.
D-Erythronate-4-phosphate dehydrogenase has the common
architecture shared with D-isomer specific 2-hydroxyacid
dehydrogenases but contains an additional C-terminal
dimerization domain in addition to an NAD-binding domain
and the "lid" domain. The lid domain corresponds to the
catalytic domain of phosphoglycerate dehydrogenase and
other proteins of the D-isomer specific 2-hydroxyacid
dehydrogenase family, which include groups such as
formate dehydrogenase, glycerate dehydrogenase,
L-alanine dehydrogenase, and S-adenosylhomocysteine
hydrolase. Despite often low sequence identity, these
proteins typically have a characteristic arrangement of
2 similar subdomains of the alpha/beta Rossmann fold
NAD+ binding form. The NAD+ binding domain is inserted
within the linear sequence of the mostly N-terminal
catalytic domain, which has a similar domain structure
to the internal NAD binding domain. Structurally, these
domains are connected by extended alpha helices and
create a cleft in which NAD is bound, primarily to the
C-terminal portion of the 2nd (internal) domain. Some
related proteins have similar structural subdomain but
with a tandem arrangement of the catalytic and
NAD-binding subdomains in the linear sequence.
Length = 343
Score = 26.3 bits (59), Expect = 5.6
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 3/40 (7%)
Query: 77 VVIDTIGYLSGIFECMAAIHALNGRYATA--LQYA-ILLV 113
+ + I Y +F + + L GR TA L+ A +LLV
Sbjct: 3 LADENIPYAEELFSPLGEVTYLPGREITAEDLKDADVLLV 42
>gnl|CDD|235343 PRK05096, PRK05096, guanosine 5'-monophosphate oxidoreductase;
Provisional.
Length = 346
Score = 26.4 bits (59), Expect = 5.8
Identities = 10/22 (45%), Positives = 13/22 (59%), Gaps = 2/22 (9%)
Query: 82 IGY--LSGIFECMAAIHALNGR 101
+GY LS + EC A H L G+
Sbjct: 194 VGYPQLSAVIECADAAHGLGGQ 215
>gnl|CDD|235023 PRK02277, PRK02277, orotate phosphoribosyltransferase-like protein;
Provisional.
Length = 200
Score = 26.0 bits (58), Expect = 6.1
Identities = 11/38 (28%), Positives = 15/38 (39%), Gaps = 8/38 (21%)
Query: 63 IKVPWTSLGSSSVEVVIDTIGYLSGIFECMAAIHALNG 100
I + W+S+GSSS L I MA +
Sbjct: 54 IHIDWSSIGSSSSR--------LRYIASAMADMLEKED 83
>gnl|CDD|223722 COG0649, NuoD, NADH:ubiquinone oxidoreductase 49 kD subunit 7
[Energy production and conversion].
Length = 398
Score = 26.0 bits (58), Expect = 7.5
Identities = 4/20 (20%), Positives = 9/20 (45%)
Query: 109 AILLVPIGHSAPTAWCFKDR 128
+ +G P + F++R
Sbjct: 123 GTFALDLGAMTPFLYAFRER 142
>gnl|CDD|218083 pfam04426, Bul1_C, Bul1 C terminus. This family contains the C
terminus of Saccharomyces cerevisiae Bul1. Bul1 binds
the ubiquitin ligase Rsp5, via an N terminal PPSY motif.
The complex containing Bul1 and Rsp5 is involved in
intracellular trafficking of the general amino acid
permease Gap1, degradation of Rog1 in cooperation with
Bul2 and GSK-3, and mitochondrial inheritance. Bul1 may
contain HEAT repeats.
Length = 226
Score = 25.8 bits (57), Expect = 7.7
Identities = 13/45 (28%), Positives = 18/45 (40%), Gaps = 15/45 (33%)
Query: 37 NLELDLEALESLVP---------FHFV------SGHINELRIKVP 66
NLE + + E+LVP F+ V HI I +P
Sbjct: 176 NLEFNPDIKETLVPSFESCLCCRFYCVRVNIKFDNHIGSATIDIP 220
>gnl|CDD|217204 pfam02729, OTCace_N, Aspartate/ornithine carbamoyltransferase,
carbamoyl-P binding domain.
Length = 140
Score = 25.6 bits (57), Expect = 8.1
Identities = 11/44 (25%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 69 SLGSSSV---EVVIDTIGYLSGIFECMAAIHALNGRYATALQYA 109
SSS+ E + DT LS + + H +G +Y+
Sbjct: 70 DASSSSLGKGESLKDTARVLSRYVDAIVIRHPSHGALEELAKYS 113
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
0.323 0.135 0.425
Gapped
Lambda K H
0.267 0.0690 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,600,782
Number of extensions: 572773
Number of successful extensions: 453
Number of sequences better than 10.0: 1
Number of HSP's gapped: 451
Number of HSP's successfully gapped: 23
Length of query: 135
Length of database: 10,937,602
Length adjustment: 87
Effective length of query: 48
Effective length of database: 7,078,804
Effective search space: 339782592
Effective search space used: 339782592
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.3 bits)