RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6282
(251 letters)
>gnl|CDD|216554 pfam01529, zf-DHHC, DHHC palmitoyltransferase. This family
includes the well known DHHC zinc binding domain as well
as three of the four conserved transmembrane regions
found in this family of palmitoyltransferase enzymes.
Length = 167
Score = 133 bits (337), Expect = 3e-39
Identities = 52/129 (40%), Positives = 71/129 (55%), Gaps = 4/129 (3%)
Query: 48 IDGGTRFCDKCYQVKADRSHHCSVCGKCVLKMDHHCPWVNNCVSFTNYKYFLLFLGYALL 107
+ +FC C +K RSHHC VC +CVL+ DHHCPW+NNC+ N+KYFLLFL Y L
Sbjct: 37 EEDELKFCSTCNIIKPPRSHHCRVCNRCVLRFDHHCPWLNNCIGRRNHKYFLLFLLYLTL 96
Query: 108 YCIYGSLSTLPYFI----QFWEGSFVHSGKFHILFLCFVAAMFSLSLVALFGYHLYLVAQ 163
Y I + + Y + F+ F + L ++ F L L L +HLYL+ +
Sbjct: 97 YLILLLVLSFYYLVYLIRNIELFFFLILSLFSSIILLVLSLFFLLFLSFLLFFHLYLILK 156
Query: 164 NKTTLEAIR 172
N TT E I+
Sbjct: 157 NITTYEYIK 165
>gnl|CDD|227598 COG5273, COG5273, Uncharacterized protein containing DHHC-type Zn
finger [General function prediction only].
Length = 309
Score = 117 bits (294), Expect = 2e-31
Identities = 49/125 (39%), Positives = 66/125 (52%), Gaps = 2/125 (1%)
Query: 49 DGGTRFCDKCYQVKADRSHHCSVCGKCVLKMDHHCPWVNNCVSFTNYKYFLLFLGYALLY 108
G FC C K RSHHCS+C +CVLK DHHCPW+NNCV F NY++F FL Y +L
Sbjct: 106 FGTENFCSTCNIYKPPRSHHCSICNRCVLKFDHHCPWINNCVGFRNYRFFYQFLLYTILV 165
Query: 109 CIYGSLSTLPYFIQFW-EGSFVHSGKFHILFLCFVAA-MFSLSLVALFGYHLYLVAQNKT 166
+ LST Y + ++F C + +F + L + +YL+ N T
Sbjct: 166 ALVVLLSTAYYIAGIFSIRHDTSLAICFLIFGCSLLGVVFFIITTLLLLFLIYLILNNLT 225
Query: 167 TLEAI 171
T+E I
Sbjct: 226 TIEFI 230
>gnl|CDD|129252 TIGR00148, TIGR00148, UbiD family decarboxylase. The member of
this family in E. coli is UbiD,
3-octaprenyl-4-hydroxybenzoate carboxy-lyase. The family
described by This model, however, is broad enough that
it is likely to contain several different
decarboxylases. Found in bacteria, archaea, and yeast,
with two members in A. fulgidus. No homologs were
detected besides those classified as orthologs. The
member from H. pylori has a C-terminal extension of just
over 100 residues that is shared in part by the Aquifex
aeolicus homolog [Unknown function, General].
Length = 438
Score = 31.2 bits (71), Expect = 0.46
Identities = 15/54 (27%), Positives = 23/54 (42%), Gaps = 10/54 (18%)
Query: 175 VFSYGPDKQGYNLGCKRNFIEIFGENKL--LWFFPVHTHL------GDGIRFPV 220
V + PD NLG R +++ +++L W P H L G + PV
Sbjct: 147 VITQDPDTGKQNLGIYR--MQVIDKDRLGIRWVPPRHGALHLRKAAERGEKLPV 198
>gnl|CDD|143324 cd07700, IgV_CD8_beta, Immunoglobulin (Ig) like domain of CD8
beta chain. IgV_CD8_beta: immunoglobulin (Ig)-like
domain in CD8 beta. The CD8 glycoprotein plays an
essential role in the control of T-cell selection,
maturation and the T-cell receptor (TCR)-mediated
response to peptide antigen. CD8 is comprised of alpha
and beta subunits and is expressed as either an
alpha/alpha or alpha/beta dimer. Both dimeric isoforms
can serve as a coreceptor for T cell activation and
differentiation, however they have distinct
physiological roles, different cellular distributions,
unique binding partners etc. Each CD8 subunit is
comprised of an extracellular domain containing a
V-type Ig-like domain, a single pass transmembrane
portion and a short intracellular domain.
Length = 107
Score = 29.5 bits (66), Expect = 0.53
Identities = 15/58 (25%), Positives = 21/58 (36%), Gaps = 7/58 (12%)
Query: 5 GTAPKHFK---LSPSLQHALFTTDNDVERKQILEQFSASLPVLN----KSIDGGTRFC 55
HF+ L L A + + E+ I +S L+ K D GT FC
Sbjct: 32 APKDSHFEFLALWSPLGGATYGEEVSQEKFSIRVTSDSSRYRLHINRVKPEDSGTYFC 89
>gnl|CDD|151220 pfam10739, DUF2550, Protein of unknown function (DUF2550). This
family is conserved in Corynebacterineae. The function
is not known though most members are annotated as either
secreted, or membrane, proteins.
Length = 129
Score = 29.6 bits (67), Expect = 0.69
Identities = 14/68 (20%), Positives = 26/68 (38%), Gaps = 12/68 (17%)
Query: 138 FLCFVAAMFSLSLVALFGYHLYLVAQNKTTLEAIRPPVFSYGPDKQGYNLGCKRNFIEIF 197
L V L+LVA+ L+ + ++R +G+ G R +
Sbjct: 1 ILALVL----LALVAVLVRRRLLLRRLGGFDCSLRVLP---ASGGRGWRHGVGR-----Y 48
Query: 198 GENKLLWF 205
G ++L W+
Sbjct: 49 GGDELEWY 56
>gnl|CDD|182363 PRK10297, PRK10297, PTS system N,N'-diacetylchitobiose-specific
transporter subunit IIC; Provisional.
Length = 452
Score = 30.2 bits (68), Expect = 1.1
Identities = 14/39 (35%), Positives = 17/39 (43%), Gaps = 5/39 (12%)
Query: 200 NKLLWFFPVH-----THLGDGIRFPVRGSNVNQYNSMGN 233
LLWFF +H T L GI P N+ Y G+
Sbjct: 241 VPLLWFFGIHGALALTALDSGIMTPWALENIATYQQYGS 279
>gnl|CDD|204444 pfam10319, 7TM_GPCR_Srj, Serpentine type 7TM GPCR chemoreceptor
Srj. Chemoreception is mediated in Caenorhabditis
elegans by members of the seven-transmembrane
G-protein-coupled receptor class (7TM GPCRs) of proteins
which are of the serpentine type. Srj is part of the Str
superfamily of chemoreceptors. The srj family is
designated as the out-group based on its location in
preliminary phylogenetic analyses of the entire
superfamily. Chemoperception is one of the central
senses of soil nematodes like C. elegans which are
otherwise 'blind' and 'deaf'.
Length = 310
Score = 29.8 bits (68), Expect = 1.3
Identities = 23/88 (26%), Positives = 32/88 (36%), Gaps = 16/88 (18%)
Query: 90 VSFTNYKYFLLFLG-YALLY---------CIYGSLSTLPYFIQFWEGSFVHSGKFHILFL 139
F NY+Y LLF + L+Y I+ F+ +G F + L
Sbjct: 35 SQFGNYRYLLLFFAIFNLIYSVVDLLVPIDIHSYRYAFVVFVS--DGPFFEYSELGQHAL 92
Query: 140 CFVAAMFSLS---LVALFGYHLYLVAQN 164
+ S S L+ F Y YLV N
Sbjct: 93 SARCSFISASYAILLIHFIYR-YLVLFN 119
>gnl|CDD|223650 COG0577, SalY, ABC-type antimicrobial peptide transport system,
permease component [Defense mechanisms].
Length = 419
Score = 29.3 bits (65), Expect = 1.9
Identities = 16/83 (19%), Positives = 29/83 (34%), Gaps = 1/83 (1%)
Query: 91 SFTNYKYFLLFLGYALLYCIYGSLSTLPYFIQFWEGSFVHSGKFHILFLCFV-AAMFSLS 149
F L +G L + LS L + F+ + + L + A + +L
Sbjct: 335 QFLLEALILGLIGGLLGILLGLGLSLLLALLLIASLFFLLALPILLSPLLILLALIVALL 394
Query: 150 LVALFGYHLYLVAQNKTTLEAIR 172
+ + G A +EA+R
Sbjct: 395 VGVIAGLLPARKAAKLDPIEALR 417
>gnl|CDD|183699 PRK12720, PRK12720, secretion system apparatus protein SsaV;
Provisional.
Length = 675
Score = 29.3 bits (66), Expect = 1.9
Identities = 16/49 (32%), Positives = 22/49 (44%), Gaps = 1/49 (2%)
Query: 1 MTPLGTAPKHFKLSPSLQHALFTTDNDVERKQILEQFSASLPVLNKSID 49
M P G P +L+P+L A D D R + E LP +N +D
Sbjct: 345 MVP-GACPLMLRLAPTLHSADLIRDIDALRWFLFEDLGVPLPEVNIEVD 392
>gnl|CDD|237510 PRK13795, PRK13795, hypothetical protein; Provisional.
Length = 636
Score = 29.2 bits (66), Expect = 2.4
Identities = 11/43 (25%), Positives = 15/43 (34%), Gaps = 8/43 (18%)
Query: 54 FCDKCYQVKADRSHHCSVCGKCVLKMDHHCPWVNNCVSFTNYK 96
F D ++ R+ C CG CV CP + K
Sbjct: 570 FKDAARLLR--RAAECVGCGVCV----GACP--TGAIRIEEGK 604
>gnl|CDD|223724 COG0651, HyfB, Formate hydrogenlyase subunit 3/Multisubunit Na+/H+
antiporter, MnhD subunit [Energy production and
conversion / Inorganic ion transport and metabolism].
Length = 504
Score = 28.9 bits (65), Expect = 2.9
Identities = 14/79 (17%), Positives = 26/79 (32%), Gaps = 16/79 (20%)
Query: 85 WVNNCVSFTNYKYFLLFLGYALLYCIYGSLSTLPYFIQFWEGSFVHSGKFHILFLCFVAA 144
+ + + LL +G LLY G+L+ F + + S +
Sbjct: 164 ILGHIGTL------LLLIGVGLLYAATGTLN-------FADIALKLSSELDPGLGIAAFL 210
Query: 145 MFSLSL---VALFGYHLYL 160
+ + LF H +L
Sbjct: 211 LLLIGFGVKAGLFPLHFWL 229
>gnl|CDD|215542 PLN03023, PLN03023, Expansin-like B1; Provisional.
Length = 247
Score = 27.9 bits (62), Expect = 4.3
Identities = 10/27 (37%), Positives = 14/27 (51%)
Query: 55 CDKCYQVKADRSHHCSVCGKCVLKMDH 81
C CYQV+ + CS G V+ D+
Sbjct: 73 CGACYQVRCKAPNLCSDDGVNVVVTDY 99
>gnl|CDD|223939 COG1007, NuoN, NADH:ubiquinone oxidoreductase subunit 2 (chain N)
[Energy production and conversion].
Length = 475
Score = 28.0 bits (63), Expect = 6.0
Identities = 18/64 (28%), Positives = 22/64 (34%), Gaps = 9/64 (14%)
Query: 96 KYF--------LLFLGYALLYCIYGSLSTLPYFIQFWEGSFVHSGKFHILFLCFVAAMFS 147
KYF L G AL+Y GSLS G ++F+ F
Sbjct: 155 KYFVLGALSSAFLLYGIALVYGATGSLSLSGIAAYLNGGGEPLGLLLGLVFI-IAGLGFK 213
Query: 148 LSLV 151
LS V
Sbjct: 214 LSAV 217
>gnl|CDD|200566 cd10941, CE4_PuuE_HpPgdA_like_2, Putative catalytic domain of
uncharacterized prokaryotic polysaccharide deacetylases
similar to bacterial PuuE allantoinases and Helicobacter
pylori peptidoglycan deacetylase (HpPgdA). This family
contains many uncharacterized prokaryotic polysaccharide
deacetylases (DCAs) that show high sequence similarity
to the catalytic domain of bacterial PuuE allantoinases
and Helicobacter pylori peptidoglycan deacetylase
(HpPgdA). PuuE allantoinase appears to be
metal-independent and specifically catalyzes the
hydrolysis of (S)-allantoin into allantoic acid.
Different from PuuE allantoinase, HpPgdA has the ability
to bind a metal ion at the active site and is
responsible for a peptidoglycan modification that
counteracts the host immune response. Both PuuE
allantoinase and HpPgdA function as homotetramers. The
monomer is composed of a 7-stranded barrel with
detectable sequence similarity to the 6-stranded barrel
NodB homology domain of DCA-like proteins in the CE4
superfamily, which removes N-linked or O-linked acetyl
groups from cell wall polysaccharides. In contrast to
typical NodB-like DCAs, PuuE allantoinase and HpPgdA do
not exhibit a solvent-accessible polysaccharide binding
groove and might only bind a small molecule at the
active site.
Length = 258
Score = 27.3 bits (61), Expect = 7.2
Identities = 12/48 (25%), Positives = 16/48 (33%)
Query: 175 VFSYGPDKQGYNLGCKRNFIEIFGENKLLWFFPVHTHLGDGIRFPVRG 222
VF G L K + + FPV G+R P+ G
Sbjct: 140 VFPTKRPGYGGPLAPKSEPLPPIRAKGGILEFPVSVTKLPGLRLPLAG 187
>gnl|CDD|165536 PHA03279, PHA03279, envelope glycoprotein K; Provisional.
Length = 361
Score = 27.3 bits (60), Expect = 8.0
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 141 FVAAMFSLSLVALFGYHLYLVAQNKTTLEAIRPP 174
FVAA+ +L L++ + K AI+PP
Sbjct: 284 FVAALAALELLSAIDHLRRETRPAKDAAAAIKPP 317
>gnl|CDD|223121 COG0043, UbiD, 3-polyprenyl-4-hydroxybenzoate decarboxylase and
related decarboxylases [Coenzyme metabolism].
Length = 477
Score = 27.6 bits (62), Expect = 8.1
Identities = 17/54 (31%), Positives = 23/54 (42%), Gaps = 10/54 (18%)
Query: 175 VFSYGPDKQGYNLGCKRNFIEIFGENKLLWFFPVHTHLG--------DGIRFPV 220
V + PDK NLG R +++ G+NKL + H H G PV
Sbjct: 152 VITRDPDKGVRNLGIYR--MQVLGKNKLAMRWVPHRHGALHLRKAEERGEPLPV 203
>gnl|CDD|218842 pfam05987, DUF898, Bacterial protein of unknown function (DUF898).
This family consists of several bacterial proteins of
unknown function. Some of the family members are
described as putative membrane proteins.
Length = 339
Score = 27.2 bits (61), Expect = 8.6
Identities = 16/80 (20%), Positives = 24/80 (30%), Gaps = 6/80 (7%)
Query: 95 YKYFLLFLGYALLYCIYGSLSTLPYFIQFWEGSFVHSGKFHILFLCFVAAMFSLSLVALF 154
YK +LL L ALL+ L + + + + L + L
Sbjct: 183 YKAYLLALLVALLFLAVLGLLLALAAGALAGAAPLGGFGLAAVGA-IILGYLVLFVGYLV 241
Query: 155 GYHLYLVAQ-----NKTTLE 169
Y N TTL+
Sbjct: 242 AAAYYRARLRNLVWNNTTLD 261
>gnl|CDD|165890 PLN02247, PLN02247, indole-3-acetic acid-amido synthetase.
Length = 606
Score = 27.2 bits (60), Expect = 9.2
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 9/50 (18%)
Query: 1 MTPLGTAPKHFKLSPSLQHALFTTDNDVERKQILEQFSASLPVLNKSIDG 50
+T GT+ KL PS T +++RK ++ +PV+NK +DG
Sbjct: 95 LTSSGTSGGQPKLMPS-------TAEELDRKTFF--YNLLVPVMNKYVDG 135
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
0.327 0.142 0.467
Gapped
Lambda K H
0.267 0.0730 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,471,009
Number of extensions: 1139630
Number of successful extensions: 1656
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1644
Number of HSP's successfully gapped: 63
Length of query: 251
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 156
Effective length of database: 6,723,972
Effective search space: 1048939632
Effective search space used: 1048939632
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: 58 (26.1 bits)