RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy349
(103 letters)
>gnl|CDD|219846 pfam08449, UAA, UAA transporter family. This family includes
transporters with a specificity for
UDP-N-acetylglucosamine.
Length = 303
Score = 91.5 bits (228), Expect = 1e-23
Identities = 37/84 (44%), Positives = 55/84 (65%), Gaps = 2/84 (2%)
Query: 18 GNLITFSQFAFIALHGFVFTSKFGTAKPH-IKVWDYMLLVVMFFITNVCNNYAFDFNIAM 76
GNL+TF+QF FI+L G ++ F KP I + Y+L+V FF+++V NN A + I+
Sbjct: 32 GNLLTFAQFLFISLVGLLYLLLFKKLKPRKIPLKTYVLIVATFFLSSVLNNEALKY-ISY 90
Query: 77 PLHMIFRAGSLITNMIMGIIILKK 100
P H+IF++ LI MI+GI+I K
Sbjct: 91 PTHVIFKSCKLIPVMILGILIYGK 114
>gnl|CDD|217049 pfam02459, Adeno_terminal, Adenoviral DNA terminal protein. This
protein is covalently attached to the terminii of
replicating DNA in vivo.
Length = 548
Score = 28.1 bits (63), Expect = 0.76
Identities = 9/27 (33%), Positives = 12/27 (44%), Gaps = 7/27 (25%)
Query: 45 PHIKVWDYMLLVVMFFITNVCNNYAFD 71
PH LLV ++ N+Y FD
Sbjct: 23 PH-------LLVGYQYLVRTLNDYLFD 42
>gnl|CDD|227599 COG5274, CYB5, Cytochrome b involved in lipid metabolism [Energy
production and conversion / Lipid metabolism].
Length = 164
Score = 27.1 bits (60), Expect = 1.6
Identities = 11/35 (31%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 3 KSFDLTSFVEEDPGGGNLI--TFSQFAFIALHGFV 35
K +D++ F++E PGG ++I T + A A +
Sbjct: 73 KVYDVSQFLDEHPGGEDIIKDTAGKDATKAFNFLH 107
>gnl|CDD|225593 COG3051, CitF, Citrate lyase, alpha subunit [Energy production
and conversion].
Length = 513
Score = 25.9 bits (57), Expect = 4.0
Identities = 9/19 (47%), Positives = 12/19 (63%)
Query: 79 HMIFRAGSLITNMIMGIII 97
H FR G L+ NM+M +I
Sbjct: 71 HHAFRGGDLVVNMVMDVIA 89
>gnl|CDD|130646 TIGR01584, citF, citrate lyase, alpha subunit. This is a model
of the alpha subunit of the holoenzyme citrate lyase
(EC 4.1.3.6) composed of alpha (EC 2.8.3.10), beta (EC
4.1.3.34), and acyl carrier protein subunits in a
stoichiometric relationship of 6:6:6. Citrate lyase is
an enzyme which converts citrate to oxaloacetate. In
bacteria, this reaction is involved in citrate
fermentation. The alpha subunit catalyzes the reaction
Acetyl-CoA + citrate = acetate + (3S)-citryl-CoA. The
seed contains an experimentally characterized member
from Lactococcus lactis subsp. lactis. The model covers
both Gram positive and Gram negative bacteria. It is
quite robust with queries scoring either quite well or
quite poorly against the model. There are currently no
hits in between the noise cutoff and trusted cutoff
[Energy metabolism, Fermentation].
Length = 492
Score = 26.0 bits (57), Expect = 4.8
Identities = 9/19 (47%), Positives = 11/19 (57%)
Query: 79 HMIFRAGSLITNMIMGIII 97
H FR G + NM+M II
Sbjct: 49 HHHFREGDYVVNMVMRIIA 67
>gnl|CDD|234948 PRK01372, ddl, D-alanine--D-alanine ligase; Reviewed.
Length = 304
Score = 25.1 bits (56), Expect = 7.1
Identities = 5/9 (55%), Positives = 5/9 (55%)
Query: 25 QFAFIALHG 33
F ALHG
Sbjct: 58 DRVFNALHG 66
>gnl|CDD|113013 pfam04223, CitF, Citrate lyase, alpha subunit (CitF). In
citrate-utilising prokaryotes, citrate lyase EC:4.1.3.6
cleaves intracellular citrate into acetate and
oxaloacetate, and is organised as a functional complex
consisting of alpha, beta, and gamma subunits. The
gamma subunit serves as an acyl carrier protein (ACP),
and has a 2'-(5''-phosphoribosyl)-3'-dephospho-CoA
prosthetic group. The citrate lyase is active only if
this prosthetic group is acetylated; this acetylation
is catalyzed by an acetate:SH-citrate lyase ligase. The
alpha subunit substitutes citryl for the acetyl group
to form citryl-S-ACP. The beta subunit completes the
reaction by cleaving the citryl to yield oxaloacetate
and (regenerated) acetyl-S-ACP. This family represents
the alpha subunit EC:2.8.3.10.
Length = 466
Score = 25.1 bits (55), Expect = 7.5
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 79 HMIFRAGSLITNMIMGIII 97
H FR G + NM+M +I
Sbjct: 26 HHHFREGDYVVNMVMEVIA 44
>gnl|CDD|212093 cd11555, SLC-NCS1sbd_u1, uncharacterized
nucleobase-cation-symport-1 (NCS1) transporter
subfamily; solute-binding domain. NCS1s are essential
components of salvage pathways for nucleobases and
related metabolites; their known substrates include
allantoin, uracil, thiamine, and nicotinamide riboside.
NCS1s belong to a superfamily which also contains the
solute carrier 5 family sodium/glucose transporters
(SLC5s), and solute carrier 6 family neurotransmitter
transporters (SLC6s).
Length = 459
Score = 25.2 bits (56), Expect = 7.8
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 8/53 (15%)
Query: 53 MLLVVMFFITNVCNNY-------AFDFNIAMPLHMIFRAGSLITNMIMGIIIL 98
+L + F I V N A+D + P + FR G LI ++ ++I
Sbjct: 298 VLAALTFLIATVGINIVANFVSPAYDLSNLAPKKISFRRGGLIAAVL-SVVIT 349
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
0.334 0.146 0.453
Gapped
Lambda K H
0.267 0.0736 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,438,552
Number of extensions: 469222
Number of successful extensions: 715
Number of sequences better than 10.0: 1
Number of HSP's gapped: 709
Number of HSP's successfully gapped: 39
Length of query: 103
Length of database: 10,937,602
Length adjustment: 69
Effective length of query: 34
Effective length of database: 7,877,176
Effective search space: 267823984
Effective search space used: 267823984
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 53 (24.2 bits)