RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1464
(107 letters)
>gnl|CDD|225902 COG3367, COG3367, Uncharacterized conserved protein [Function
unknown].
Length = 339
Score = 30.4 bits (69), Expect = 0.12
Identities = 12/32 (37%), Positives = 14/32 (43%), Gaps = 1/32 (3%)
Query: 22 IFRYLEYALTESLIRKQDAPRVFSLVSQSAVG 53
LEY T RK DA V + + AVG
Sbjct: 131 PPLDLEYLCTGM-ARKVDAKVVLVVGTDCAVG 161
>gnl|CDD|221257 pfam11838, DUF3358, Domain of unknown function (DUF3358). This
domain is functionally uncharacterized. This domain is
found in eukaryotes and bacteria. This domain is found
to the C-terminus of an aminopeptidase domain.
Length = 323
Score = 29.6 bits (67), Expect = 0.28
Identities = 15/81 (18%), Positives = 29/81 (35%), Gaps = 1/81 (1%)
Query: 21 LIFRYLEYALTESLIRKQDAPRV-FSLVSQSAVGHTVALDFLYNNWDRIKKHFNGTQFQV 79
L + L + L + + QD V L + G + ++ N+D + K +
Sbjct: 218 LKAKALNFLLDDDSVSNQDIRAVMAGLRRSNQAGRELLWPWVERNFDALAKKLPRGSSAL 277
Query: 80 TSIVKFCTKRISNELELTQAE 100
+V S+ L + E
Sbjct: 278 GRVVGLYPSGFSSAELLDEVE 298
>gnl|CDD|224166 COG1245, COG1245, Predicted ATPase, RNase L inhibitor (RLI) homolog
[General function prediction only].
Length = 591
Score = 27.6 bits (62), Expect = 1.4
Identities = 13/50 (26%), Positives = 22/50 (44%), Gaps = 13/50 (26%)
Query: 42 RVFSLVSQSAVGHTVALDFL----------YNN---WDRIKKHFNGTQFQ 78
+V ++ + +G + AL L Y + WD + K F GT+ Q
Sbjct: 101 KVVGILGPNGIGKSTALKILAGELKPNLGRYEDPPSWDEVIKRFRGTELQ 150
>gnl|CDD|213203 cd03236, ABC_RNaseL_inhibitor_domain1, The ATP-binding cassette
domain 1 of RNase L inhibitor. The ABC ATPase, RNase L
inhibitor (RLI), is a key enzyme in ribosomal
biogenesis, formation of translation preinitiation
complexes, and assembly of HIV capsids. RLI s are not
transport proteins and thus cluster with a group of
soluble proteins that lack the transmembrane components
commonly found in other members of the family.
Structurally, RLIs have an N-terminal Fe-S domain and
two nucleotide binding domains which are arranged to
form two composite active sites in their interface
cleft. RLI is one of the most conserved enzymes between
archaea and eukaryotes with a sequence identity more
than 48%. The high degree of evolutionary conservation
suggests that RLI performs a central role in archaeal
and eukaryotic physiology.
Length = 255
Score = 26.6 bits (59), Expect = 2.5
Identities = 13/49 (26%), Positives = 19/49 (38%), Gaps = 13/49 (26%)
Query: 43 VFSLVSQSAVGHTVALDFLYN-------------NWDRIKKHFNGTQFQ 78
V LV + +G + AL L +WD I F G++ Q
Sbjct: 28 VLGLVGPNGIGKSTALKILAGKLKPNLGKFDDPPDWDEILDEFRGSELQ 76
>gnl|CDD|213326 cd12118, ttLC_FACS_AEE21_like, Fatty acyl-CoA synthetases similar
to LC-FACS from Thermus thermophiles and Arabidopsis.
This family includes fatty acyl-CoA synthetases that can
activate medium to long-chain fatty acids. These enzymes
catalyze the ATP-dependent acylation of fatty acids in a
two-step reaction. The carboxylate substrate first
reacts with ATP to form an acyl-adenylate intermediate,
which then reacts with CoA to produce an acyl-CoA ester.
Fatty acyl-CoA synthetases are responsible for fatty
acid degradation as well as physiological regulation of
cellular functions via the production of fatty acyl-CoA
esters. The fatty acyl-CoA synthetase from Thermus
thermophiles in this family has been shown to catalyze
the long-chain fatty acid, myristoyl acid. Also included
in this family are acyl activating enzymes from
Arabidopsis, which contains a large number of proteins
from this family with up to 63 different genes, many of
which are uncharacterized.
Length = 520
Score = 26.8 bits (60), Expect = 2.6
Identities = 14/46 (30%), Positives = 21/46 (45%), Gaps = 6/46 (13%)
Query: 35 IRKQDAPRVFSLVSQSAVGH-----TVALDFLYNNWDRIKKHFNGT 75
+RK DAP ++ L+ + V H TV L+ L N + K
Sbjct: 239 LRKVDAPAIYDLIEKHKVTHLCGAPTV-LNMLANAPEADKLPLPRP 283
>gnl|CDD|185656 PTZ00478, PTZ00478, Sec superfamily; Provisional.
Length = 81
Score = 25.1 bits (55), Expect = 5.0
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 1 MFYACRSRRFLIGLICYFLSLIF 23
+ YAC F++G I Y + L+F
Sbjct: 48 IAYACSVGFFIMGFIGYSIKLVF 70
>gnl|CDD|146683 pfam04172, LrgB, LrgB-like family. The two products of the lrgAB
operon are potential membrane proteins, and LrgA and
LrgB are both thought to control of murein hydrolase
activity and penicillin tolerance.
Length = 215
Score = 25.6 bits (57), Expect = 5.6
Identities = 8/19 (42%), Positives = 11/19 (57%), Gaps = 1/19 (5%)
Query: 55 TVALDF-LYNNWDRIKKHF 72
TVAL LY +K+H+
Sbjct: 59 TVALAVPLYKQRALLKRHW 77
>gnl|CDD|221116 pfam11457, DUF3021, Protein of unknown function (DUF3021). This
is a bacterial family of uncharacterized proteins.
Length = 134
Score = 25.3 bits (56), Expect = 5.9
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 10 FLIGLICYFLSLIFRYLEYALTESLI 35
FLIG + SLIF ++L + +
Sbjct: 49 FLIGALFGLASLIFETERWSLLKQTL 74
>gnl|CDD|129428 TIGR00328, flhB, flagellar biosynthetic protein FlhB. FlhB and its
functionally equivalent orthologs, from among a larger
superfamily of proteins involved in type III protein
export systems, are specifically involved in flagellar
protein export. The seed members are restricted and the
trusted cutoff is set high such that the proteins
gathered by this model play roles specifically related
to flagellar structures. Full-length homologs scoring
below the trusted cutoff are involved in peptide export
but not necessarily in the creation of flagella
[Cellular processes, Chemotaxis and motility].
Length = 347
Score = 25.3 bits (56), Expect = 7.4
Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 7/67 (10%)
Query: 10 FLIGLICYF-----LSLIFRYLEYALTESL-IRKQDAPRVFSLVSQSAVGHTVALDFLYN 63
FL+ + YF L + Y+L +++ A + LV + D+ +
Sbjct: 147 FLVSFVAYFVLRNSLGELLSLSLYSLVQAITNFLDIAKSLLILVLLLLLV-IAVFDYFFQ 205
Query: 64 NWDRIKK 70
W IK
Sbjct: 206 RWQYIKS 212
>gnl|CDD|217188 pfam02689, Herpes_Helicase, Helicase. This family consists of
Helicases from the Herpes viruses. Helicases are
responsible for the unwinding of DNA and are essential
for replication and completion of the viral life cycle.
Length = 801
Score = 25.0 bits (55), Expect = 9.5
Identities = 23/90 (25%), Positives = 39/90 (43%), Gaps = 9/90 (10%)
Query: 18 FLSLIFRYLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLYNNWDRIKKHFNGTQF 77
F + F + T SL+ PR LV + +G L+ NN + +
Sbjct: 657 FAPVPFGAEDLQRTASLLLSLKLPR---LVVRDQMGFISVLN---NNVSKFVESLEDKSL 710
Query: 78 QVTSIVKFCTKRISNELELTQAESQAISLS 107
+ + V + IS++L +T A+SQ +SL
Sbjct: 711 HMCTTVDYG---ISSKLAMTIAKSQGLSLD 737
>gnl|CDD|193511 cd03891, M20_DapE_proteobac, M20 Peptidase proteobacterial DapE
encoded N-succinyl-L,L-diaminopimelic acid
desuccinylase. Peptidase M20 family, proteobacterial
DapE encoded N-succinyl-L,L-diaminopimelic acid
desuccinylase (DapE; aspartyl dipeptidase;
succinyl-diaminopimelate desuccinylase) subfamily. DapE
catalyzes the hydrolysis of
N-succinyl-L,L-diaminopimelate (L,L-SDAP) to
L,L-diaminopimelate and succinate. It has been shown
that DapE is essential for cell growth and
proliferation. DapEs have been purified from Escherichia
coli and Haemophilus influenzae, while the genes that
encode for DapEs have been sequenced from several
bacterial sources such as Corynebacterium glutamicum,
Helicobacter pylori, Neisseria meningitidis and
Mycobacterium tuberculosis. DapE is a small, dimeric
enzyme that requires two zinc atoms per molecule for
full enzymatic activity. All of the amino acids that
function as metal binding ligands are strictly conserved
in DapE.
Length = 366
Score = 25.1 bits (56), Expect = 9.6
Identities = 7/18 (38%), Positives = 10/18 (55%)
Query: 65 WDRIKKHFNGTQFQVTSI 82
WD + F T Q+T+I
Sbjct: 215 WDEGNEFFPPTSLQITNI 232
>gnl|CDD|183516 PRK12416, PRK12416, protoporphyrinogen oxidase; Provisional.
Length = 463
Score = 25.2 bits (55), Expect = 9.8
Identities = 21/68 (30%), Positives = 29/68 (42%), Gaps = 7/68 (10%)
Query: 25 YLEYALTESLIRKQDAPRVFSLVSQSAVGHTVALDFLY-----NNWDRIKKHF--NGTQF 77
+LE L + L+ +Q AP + + S T+A Y N + I K F N QF
Sbjct: 151 FLESFLGKELVERQIAPVLSGVYSGKLNELTMASTLPYLLDYKNKYGSIIKGFEENKKQF 210
Query: 78 QVTSIVKF 85
Q KF
Sbjct: 211 QSAGNKKF 218
>gnl|CDD|223576 COG0502, BioB, Biotin synthase and related enzymes [Coenzyme
metabolism].
Length = 335
Score = 24.9 bits (55), Expect = 9.8
Identities = 6/27 (22%), Positives = 16/27 (59%)
Query: 61 LYNNWDRIKKHFNGTQFQVTSIVKFCT 87
L+ + + HF+G + Q+++++ T
Sbjct: 32 LFEAAQKHRLHFDGNEVQLSTLISIKT 58
>gnl|CDD|235366 PRK05218, PRK05218, heat shock protein 90; Provisional.
Length = 613
Score = 25.1 bits (56), Expect = 10.0
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 78 QVTSIVKFCTKRISNELE 95
V I K TK++ +ELE
Sbjct: 333 VVKKIRKAITKKVLDELE 350
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
0.329 0.138 0.406
Gapped
Lambda K H
0.267 0.0673 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,115,387
Number of extensions: 420314
Number of successful extensions: 593
Number of sequences better than 10.0: 1
Number of HSP's gapped: 593
Number of HSP's successfully gapped: 32
Length of query: 107
Length of database: 10,937,602
Length adjustment: 72
Effective length of query: 35
Effective length of database: 7,744,114
Effective search space: 271043990
Effective search space used: 271043990
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 (21.8 bits)
S2: 53 (24.3 bits)